c-di-GMP phosphodiesterase class II (HD-GYP) domains in Actinobacteria
Actinobacteria
. Acidimicrobium ferrooxidans DSM 10331 .................. 0 hits
. Acidothermus cellulolyticus 11B ........................ 1 hit
. Actinoplanes missouriensis 431 ......................... 0 hits
. Actinoplanes sp. SE50/110 .............................. 0 hits*
. Actinosynnema mirum DSM 43827 .......................... 0 hits
. Amycolatopsis mediterranei U32 ......................... 0 hits
. Amycolicicoccus subflavus DQS3-9A1 ..................... 0 hits
. Arcanobacterium haemolyticum DSM 20595 ................. 0 hits
. Arthrobacter arilaitensis Re117......................... 0 hits
. Arthrobacter aurescens TC1 ............................. 0 hits
. Arthrobacter chlorophenolicus A6 ....................... 0 hits
. Arthrobacter phenanthrenivorans Sphe3 .................. 0 hits
. Arthrobacter sp. FB24 .................................. 0 hits
. Arthrobacter sp. Rue61a ................................ 0 hits
. Atopobium parvulum DSM 20469 ........................... 0 hits
. Beutenbergia cavernae DSM 12333 ........................ 0 hits
. Bifidobacterium adolescentis ATCC 15703 ................ 0 hits
. Bifidobacterium animalis subsp. lactis AD011............ 0 hits
. Bifidobacterium asteroides PRL2011...................... 0 hits
. Bifidobacterium bifidum S17 ............................ 0 hits
. Bifidobacterium breve ACS-071-V-Sch8b .................. 0 hits
. Bifidobacterium dentium Bd1 ............................ 0 hits
. Bifidobacterium longum NCC2705 ......................... 0 hits
. Blastococcus saxobsidens DD2 ........................... 0 hits
. Brachybacterium faecium DSM 4810........................ 0 hits
. Catenulispora acidiphila DSM 44928 ..................... 2 hits
. Cellulomonas fimi ATCC 484 ............................ 0 hits
. Cellulomonas flavigena DSM 20109 ....................... 0 hits
. Clavibacter michiganensis subsp. michiganensis NCPPB 382 0 hits
. Conexibacter woesei DSM 14684 .......................... 8 hits
. Coriobacterium glomerans PW2 ........................... 0 hits
. Corynebacterium aurimucosum ATCC 700975 ................ 0 hits
. Corynebacterium diphtheriae NCTC 13129 ................. 0 hits
. Corynebacterium efficiens YS-314 ....................... 0 hits
. Corynebacterium glutamicum ATCC 13032 .................. 0 hits
. Corynebacterium jeikeium K411 .......................... 0 hits
. Corynebacterium kroppenstedtii DSM 44385 ............... 0 hits
. Corynebacterium pseudotuberculosis FRC41 ............... 0 hits
. Corynebacterium resistens DSM 45100 .................... 0 hits
. Corynebacterium ulcerans BR-AD22 ...................... 0 hits
. Corynebacterium urealyticum DSM 7109 ................... 0 hits
. Corynebacterium variabile DSM 44702 .................... 0 hits
. Cryptobacterium curtum DSM 15641 ....................... 0 hits
. Eggerthella lenta DSM 2243 ............................. 2 hits
. Eggerthella sp. YY7918 ................................. 2 hits
. Frankia alni ACN14a .................................... 1 hit
. Frankia sp. CcI3 ....................................... 0 hits
. Frankia sp. EAN1pec .................................... 0 hits
. Frankia sp. EuI1c ...................................... 0 hits
. Frankia symbiont of Datisca glomerata .................. 0 hits
. Gardnerella vaginalis 409-05 ........................... 0 hits
. Geodermatophilus obscurus DSM 43160 .................... 0 hits
. Gordonia bronchialis DSM 43247 ......................... 0 hits
. Gordonia polyisoprenivorans VH2 ........................ 0 hits
. Gordonia sp. KTR9 ...................................... 0 hits
. Intrasporangium calvum DSM 43043 ....................... 1 hit
. Isoptericola variabilis 225 ............................ 0 hits
. Jonesia denitrificans DSM 20603 ........................ 0 hits
. Kineococcus radiotolerans SRS30216 ..................... 1 hit
. Kitasatospora setae KM-6054 ............................ 1 hit
. Kocuria rhizophila DC2201 .............................. 0 hits
. Kribbella flavida DSM 17836 ............................ 1 hit
. Kytococcus sedentarius DSM 20547 ....................... 1 hit
. Leifsonia xyli subsp. xyli str. CTCB07 ................. 0 hits
. Microbacterium testaceum StLB037 ....................... 0 hits
. Micrococcus luteus NCTC 2665 ........................... 0 hits
. Microlunatus phosphovorus NM-1 ......................... 0 hits
. Micromonospora aurantiaca ATCC 27029 ................... 0 hits
. Micromonospora sp. L5 .................................. 0 hits
. Mobiluncus curtisii ATCC 43063 ......................... 0 hits
. Modestobacter marinus .................................. 1 hit
. Mycobacterium abscessus ATCC 19977 ..................... 0 hits
. Mycobacterium africanum GM041182 ....................... 0 hits
. Mycobacterium avium subsp. paratuberculosis K-10 ....... 1 hit
. Mycobacterium bovis AF2122/97 .......................... 0 hits
. Mycobacterium canettii CIPT 140010059 .................. 0 hits
. Mycobacterium chubuense NBB4 ........................... 1 hit
. Mycobacterium gilvum PYR-GCK ........................... 1 hit
. Mycobacterium indicus pranii MTCC 9506 ................. 1 hit
. Mycobacterium intracellulare ATCC 13950 ................ 1 hit
. Mycobacterium leprae TN ................................ 0 hits
. Mycobacterium marinum M ................................ 0 hits
. Mycobacterium massiliense str. GO 06 ................... 0 hits
. Mycobacterium rhodesiae NBB3 ........................... 1 hit
. Mycobacterium smegmatis str. MC2 155 ................... 0 hits
. Mycobacterium sp. JDM601 ............................... 0 hits
. Mycobacterium sp. JLS .................................. 1 hit
. Mycobacterium sp. KMS .................................. 1 hit
. Mycobacterium sp. MCS .................................. 1 hit
. Mycobacterium sp. MOTT36Y .............................. 1 hit
. Mycobacterium tuberculosis H37Rv ....................... 0 hits
. Mycobacterium ulcerans Agy99 ........................... 0 hits
. Mycobacterium vanbaalenii PYR-1 ........................ 1 hit
. Nakamurella multipartita DSM 44233 ..................... 1 hits
. Nocardia brasiliensis ATCC 700358 ...................... 0 hits
. Nocardia cyriacigeorgica GUH-2 ......................... 0 hits
. Nocardia farcinica IFM 10152 ........................... 0 hits
. Nocardioides sp. JS614 ................................. 2 hits
. Nocardiopsis alba ATCC BAA-2165 ........................ 1 hit
. Nocardiopsis dassonvillei ssp. dassonvillei DSM 43111... 2 hits
. Olsenella uli DSM 7084 ................................. 0 hits
. Propionibacterium acidipropionici ATCC 4875 ............ 0 hits
. Propionibacterium acnes KPA171202 ...................... 0 hits
. Propionibacterium freudenreichii ssp. shermanii CIRM-BIA1 0 hits
. Propionibacterium propionicum F0230a ................... 0 hits
. Pseudonocardia dioxanivorans CB1190 .................... 2 hits
. Renibacterium salmoninarum ATCC 33209 .................. 0 hits
. Rhodococcus equi 103S .................................. 0 hits
. Rhodococcus erythropolis PR4 ........................... 0 hits
. Rhodococcus jostii RHA1 ................................ 1 hit
. Rhodococcus opacus B4 .................................. 1 hit
. Rothia dentocariosa ATCC 17931 ......................... 0 hits
. Rothia mucilaginosa DY-18 .............................. 0 hits
. Rubrobacter xylanophilus DSM 9941 ...................... 3 hits
. Saccharomonospora viridis DSM 43017 .................... 0 hits
. Saccharopolyspora erythraea NRRL 2338 .................. 1 hit
. Saccharothrix espanaensis DSM 44229 .................... 1 hit
. Salinispora arenicola CNS-205 .......................... 0 hits
. Salinispora tropica CNB-440 ............................ 0 hits
. Sanguibacter keddieii DSM 10542 ........................ 0 hits
. Segniliparus rotundus DSM 44985 ........................ 0 hits
. Slackia heliotrinireducens DSM 20476 ................... 0 hits
. Stackebrandtia nassauensis DSM 44728 ................... 0 hits
. Streptomyces avermitilis MA-4680 ....................... 1 hit
. Streptomyces bingchenggensis BCW-1 ..................... 1 hit
. Streptomyces cattleya NRRL 8057 = DSM 46488 ............ 0 hits
. Streptomyces coelicolor A3(2) .......................... 1 hit
. Streptomyces flavogriseus ATCC 33331 ................... 1 hit
. Streptomyces griseus subsp. griseus NBRC 13350 ......... 0 hits
. Streptomyces hygroscopicus subsp. jinggangensis 5008 ... 1 hits
. Streptomyces scabiei 87.22 ............................. 0 hits
. Streptomyces sp. SirexAA-E ............................. 1 hit
. Streptomyces venezuelae ATCC 10712 ..................... 1 hit
. Streptomyces violaceusniger Tu 4113 .................... 1 hit
. Streptosporangium roseum DSM 43021 ..................... 1 hit
. Thermobifida fusca YX .................................. 1 hit
. Thermobispora bispora DSM 43833 ........................ 1 hit
. Thermomonospora curvata DSM 43183 ...................... 1 hit
. Tropheryma whipplei TW08/27 ............................ 0 hits
. Tsukamurella paurometabola DSM 20162 ................... 0 hits
. Verrucosispora maris AB-18-032 ......................... 0 hits
. Xylanimonas cellulosilytica DSM 15894 .................. 0 hits
Actinobacteria
Acidothermus cellulolyticus 11B
Acel_0546 ABK52319 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Actinoplanes sp. SE50/110
*ACPL_3942 AEV84837 putative signaling protei... BLink CDD UniProt Pfam InterPro
Catenulispora acidiphila DSM 44928
Caci_7735 ACU76559 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Caci_3634 ACU72537 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Conexibacter woesei DSM 14684
HD_GYP only
Cwoe_2575 ADB50996 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Cwoe_3786 ADB52203 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Cwoe_3826 ADB52243 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Cwoe_4475 ADB52888 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Cwoe_5850 ADB54250 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
GGDEF-HD-GYP
Cwoe_2934 ADB51353 diguanylate cyclase and m... BLink CDD UniProt Pfam InterPro
Cwoe_3115 ADB51534 diguanylate cyclase and m... BLink CDD UniProt Pfam InterPro
Cwoe_4714 ADB53127 diguanylate cyclase and m... BLink CDD UniProt Pfam InterPro
Eggerthella lenta DSM 2243
HD_GYP only
Elen_0387 ACV54377 unnamed protein product [... BLink CDD UniProt Pfam InterPro
GGDEF-HD-GYP
Elen_1344 ACV55313 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Eggerthella sp. YY7918
EGYY_23600 BAK45429 hypothetical protein EGY... BLink CDD UniProt Pfam InterPro
EGYY_27190 BAK45714 response regulator [Egge... BLink CDD UniProt Pfam InterPro
Frankia alni ACN14a
GGDEF-HD-GYP
FRAAL6432 CAJ65055 unnamed protein product... BLink CDD UniProt Pfam InterPro
Intrasporangium calvum DSM 43043
Intca_2525 ADU49031 metal dependent phosphoh... BLink CDD UniProt Pfam InterPro
*Intca_2524 ADU49030 metal dependent phosphoh... BLink CDD UniProt Pfam InterPro
Kineococcus radiotolerans SRS30216
Krad_0573 ABS02062 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Kitasatospora setae KM-6054
KSE_49220 BAJ30700 unnamed protein product [... BLink CDD UniProt Pfam InterPro
*KSE_49230 BAJ30701 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Kribbella flavida DSM 17836
Kfla_5213 ADB34228 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
*Kfla_5212 ADB34227 response regulator receiv... BLink CDD UniProt Pfam InterPro
Kytococcus sedentarius DSM 20547
Ksed_18540 ACV06856 HD-GYP domain-containing... BLink CDD UniProt Pfam InterPro
*Ksed_18530 ACV06855 response regulator conta... BLink CDD UniProt Pfam InterPro
Mycobacterium avium subsp. paratuberculosis str. K-10
MAP3352c AAS05902 hypothetical protein MAP3... BLink CDD UniProt Pfam InterPro
Mycobacterium chubuense NBB4
Mycch_1791 AFM16582 HD-GYP domain-containing... BLink CDD UniProt Pfam InterPro
Mycobacterium gilvum PYR-GCK
Mflv_4288 ABP46757 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Mycobacterium indicus pranii MTCC 9506
MIP_06119 AFS16117 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Mycobacterium intracellulare ATCC 13950
OCU_40510 AFC45270 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Mycobacterium rhodesiae NBB3
MycrhN_0794 AEV71425 unnamed protein product... BLink CDD UniProt Pfam InterPro
Mycobacterium sp. JLS
Mjls_0915 ABN96724 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Mycobacterium sp. KMS
Mkms_0925 ABG07024 transcriptional regulator... BLink CDD UniProt Pfam InterPro
Mycobacterium sp. MCS
Mmcs_0908 ABG07024 transcriptional regulator... BLink CDD UniProt Pfam InterPro
Mycobacterium sp. MOTT36Y
W7S_20270 AFJ37005 hypothetical protein W7S_... BLink CDD UniProt Pfam InterPro
Mycobacterium vanbaalenii PYR-1
Mvan_2058 ABM12875 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Nakamurella multipartita DSM 44233
Namu_0321 ACV76751 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Nocardioides sp. JS614
Noca_3310 ABL82812 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Noca_4918 ABL79498 metal-dependent phosphohy... BLink CDD UniProt Pfam InterPro
Nocardiopsis alba ATCC BAA-2165
B005_0866 AFR06495 hypothetical protein B005... BLink CDD UniProt Pfam InterPro
*B005_0865 AFR06009 HD domain protein [Nocard... BLink CDD UniProt Pfam InterPro
Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111
Ndas_3699 ADH69097 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
*Ndas_3698 ADH69096 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Pseudonocardia dioxanivorans CB1190
Psed_4328 AEA26488 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Psed_0243 AEA22518 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Rhodococcus jostii RHA1
RHA1_ro06927 ABG98693 hypothetical protein R... BLink CDD UniProt Pfam InterPro
Rhodococcus opacus B4
ROP_68950 BAH55142 LuxR family transcription... BLink CDD UniProt Pfam InterPro
Rubrobacter xylanophilus DSM 9941
HD-GYP only
Rxyl_0861 ABG03828 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Rxyl_1017 ABG03983 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
GGDEF-HD-GYP
Rxyl_1018 ABG03984 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Saccharopolyspora erythraea NRRL 2338
GGDEF-HD-GYP
SACE_3289 CAM02564 diguanylate cyclase [Saca... BLink CDD UniProt Pfam InterPro
Saccharothrix espanaensis DSM 44229
BN6_44170 CCH31698 putative diguanylate cycl... BLink CDD UniProt Pfam InterPro
Streptomyces avermitilis MA-4680
SAV3036 BAC70747 putative integral membran... BLink CDD UniProt Pfam InterPro
Streptomyces bingchenggensis BCW-1
SBI_04008 ADI07129 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Streptomyces coelicolor A3(2)
SCO5218 CAB94603 putative integral membran... BLink CDD UniProt Pfam InterPro
Streptomyces flavogriseus ATCC 33331
Sfla_2070 ADW03504 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Streptomyces hygroscopicus subsp. jinggangensis 5008
SHJG_6331 AEY91598 integral membrane protein... BLink CDD UniProt Pfam InterPro
Streptomyces sp. SirexAA-E
SACTE_4455 AEN12285 metal dependent phosphoh... BLink CDD UniProt Pfam InterPro
Streptomyces venezuelae ATCC 10712
SVEN_4872 CCA58158 putative integral membran... BLink CDD UniProt Pfam InterPro
Streptomyces violaceusniger Tu 4113
Strvi_1538 AEM81278 unnamed protein product ... BLink CDD UniProt Pfam InterPro
Streptosporangium roseum DSM 43021
Sros_8321 ACZ90969 unnamed protein productn... BLink CDD UniProt Pfam InterPro
Thermobifida fusca YX
Tfu_0550 AAZ54588 unnamed protein product [... BLink CDD UniProt Pfam InterPro
*Tfu_0551 AAZ54589 unnamed protein product [... BLink CDD UniProt Pfam InterPro
Thermobispora bispora DSM 43833
Tbis_2919 ADG89617 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Thermomonospora curvata DSM 43183
Tcur_3705 ACY99238 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
*Tcur_3704 ACY99237 metal dependent phosphohy... BLink CDD UniProt Pfam InterPro
Please send your corrections, questions and comments to Michael Galperin