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Conserved domains on  [gi|1268824863|ref|WP_099049580|]
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MULTISPECIES: HDOD domain-containing protein [Shewanella]

Protein Classification

HDOD domain-containing protein( domain architecture ID 11446997)

HD-like signal output (HDOD) domain-containing protein similar to Methylococcus capsulatus MmoQ Response regulator

CATH:  1.10.3210.10
PubMed:  9868367|10943560
SCOP:  4003049

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HDOD COG1639
HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];
92-325 3.37e-39

HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];


:

Pssm-ID: 441246 [Multi-domain]  Cd Length: 244  Bit Score: 138.94  E-value: 3.37e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863  92 QQIADSVLQIP---GRILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLR 168
Cdd:COG1639     1 EELLKGILELPplpEVALRLLELLADPDASLAELARLISQDPALTARLLRLANSAYYGLG-RKITSVEQAVVLLGLDTVR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 169 RIVTTCMMKEMIDIKPIYFRRFGAHLWRHSLQVAF----LAGELETEEPDTAFMVGLLHDVGKIAIFKLL----LDAFNQ 240
Cdd:COG1639    80 NLALALALRQLFSAKLPAYGLDLRRFWRHSLAVAAaaraLARRLGLLDPEEAFLAGLLHDIGKLVLLSLFpeeyAELLAL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 241 ADPGEQPKSWLFRQVMTARSLSLSSLLVSCWQLPKAF-EIVLQPLANVGAKPENRLSQLIWQANLISEcSMLVEEDKLPP 319
Cdd:COG1639   160 AEADGLSLAEAEREVLGTDHAELGAALARKWGLPEELvEAIRYHHDPEAAGEHRRLAALVHLANRLAR-ALGEEDPALPE 238


                  ....*.
gi 1268824863 320 ELLDAL 325
Cdd:COG1639   239 AALALL 244
 
Name Accession Description Interval E-value
HDOD COG1639
HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];
92-325 3.37e-39

HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];


Pssm-ID: 441246 [Multi-domain]  Cd Length: 244  Bit Score: 138.94  E-value: 3.37e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863  92 QQIADSVLQIP---GRILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLR 168
Cdd:COG1639     1 EELLKGILELPplpEVALRLLELLADPDASLAELARLISQDPALTARLLRLANSAYYGLG-RKITSVEQAVVLLGLDTVR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 169 RIVTTCMMKEMIDIKPIYFRRFGAHLWRHSLQVAF----LAGELETEEPDTAFMVGLLHDVGKIAIFKLL----LDAFNQ 240
Cdd:COG1639    80 NLALALALRQLFSAKLPAYGLDLRRFWRHSLAVAAaaraLARRLGLLDPEEAFLAGLLHDIGKLVLLSLFpeeyAELLAL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 241 ADPGEQPKSWLFRQVMTARSLSLSSLLVSCWQLPKAF-EIVLQPLANVGAKPENRLSQLIWQANLISEcSMLVEEDKLPP 319
Cdd:COG1639   160 AEADGLSLAEAEREVLGTDHAELGAALARKWGLPEELvEAIRYHHDPEAAGEHRRLAALVHLANRLAR-ALGEEDPALPE 238


                  ....*.
gi 1268824863 320 ELLDAL 325
Cdd:COG1639   239 AALALL 244
HDOD pfam08668
HDOD domain;
100-240 1.14e-34

HDOD domain;


Pssm-ID: 430141 [Multi-domain]  Cd Length: 196  Bit Score: 125.80  E-value: 1.14e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 100 QIPGRILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLRRIVTTCMMKEM 179
Cdd:pfam08668   3 TLPDVALRILALLNDPDSSISDIAELISRDPALTARLLRLANSAYYGLR-RPISTISQAVVLLGLRTVRNLALGISVKRI 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1268824863 180 IDIKPIYFRRFgAHLWRHSLQVAF----LAGELETEEPDTAFMVGLLHDVGKIAIFKLLLDAFNQ 240
Cdd:pfam08668  82 FRGTPPLGFDL-KGFWEHSLACALaarlLARRLGLDDPEEAFLAGLLHDIGKLILLSLLPDKYEE 145
HDc smart00471
Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic ...
 190-228 5.42e-05

Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).


Pssm-ID: 214679 [Multi-domain]  Cd Length: 124  Bit Score: 42.28  E-value: 5.42e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1268824863  190 FGAHLWRHSLQVAFLAGEL----ETEEPDTAFMVGLLHDVGKI 228
Cdd:smart00471   1 SDYHVFEHSLRVAQLAAALaeelGLLDIELLLLAALLHDIGKP 43
HDc cd00077
Metal dependent phosphohydrolases with conserved 'HD' motif
 193-230 4.78e-04

Metal dependent phosphohydrolases with conserved 'HD' motif


Pssm-ID: 238032 [Multi-domain]  Cd Length: 145  Bit Score: 40.02  E-value: 4.78e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1268824863 193 HLWRHSLQVAFLAGEL------ETEEPDTAFMVGLLHDVGKIAI 230
Cdd:cd00077     2 HRFEHSLRVAQLARRLaeelglSEEDIELLRLAALLHDIGKPGT 45
PRK12705 PRK12705
hypothetical protein; Provisional
 185-227 7.95e-04

hypothetical protein; Provisional


Pssm-ID: 237178 [Multi-domain]  Cd Length: 508  Bit Score: 41.23  E-value: 7.95e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1268824863 185 IYFR-RFGAHLWRHSLQVAFLAGELETE---EPDTAFMVGLLHDVGK 227
Cdd:PRK12705  314 LYFRtSYGQNVLSHSLEVAHLAGIIAAEiglDPALAKRAGLLHDIGK 360
HDIG TIGR00277
HDIG domain; This domain is found in a few known nucleotidyltransferes and in a large number ...
 196-227 4.68e-03

HDIG domain; This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG. This model may annotate homologous domains in which one or more of the His residues is conserved but misaligned, and some probable false-positive hits.


Pssm-ID: 272994 [Multi-domain]  Cd Length: 80  Bit Score: 35.77  E-value: 4.68e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1268824863 196 RHSLQVAFLAGELETE---EPDTAFMVGLLHDVGK 227
Cdd:TIGR00277   7 QHSLEVAKLAEALARElglDVELARRGALLHDIGK 41
 
Name Accession Description Interval E-value
HDOD COG1639
HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];
92-325 3.37e-39

HD-like signal output (HDOD) domain, no enzymatic activity [Signal transduction mechanisms];


Pssm-ID: 441246 [Multi-domain]  Cd Length: 244  Bit Score: 138.94  E-value: 3.37e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863  92 QQIADSVLQIP---GRILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLR 168
Cdd:COG1639     1 EELLKGILELPplpEVALRLLELLADPDASLAELARLISQDPALTARLLRLANSAYYGLG-RKITSVEQAVVLLGLDTVR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 169 RIVTTCMMKEMIDIKPIYFRRFGAHLWRHSLQVAF----LAGELETEEPDTAFMVGLLHDVGKIAIFKLL----LDAFNQ 240
Cdd:COG1639    80 NLALALALRQLFSAKLPAYGLDLRRFWRHSLAVAAaaraLARRLGLLDPEEAFLAGLLHDIGKLVLLSLFpeeyAELLAL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 241 ADPGEQPKSWLFRQVMTARSLSLSSLLVSCWQLPKAF-EIVLQPLANVGAKPENRLSQLIWQANLISEcSMLVEEDKLPP 319
Cdd:COG1639   160 AEADGLSLAEAEREVLGTDHAELGAALARKWGLPEELvEAIRYHHDPEAAGEHRRLAALVHLANRLAR-ALGEEDPALPE 238


                  ....*.
gi 1268824863 320 ELLDAL 325
Cdd:COG1639   239 AALALL 244
HDOD pfam08668
HDOD domain;
100-240 1.14e-34

HDOD domain;


Pssm-ID: 430141 [Multi-domain]  Cd Length: 196  Bit Score: 125.80  E-value: 1.14e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 100 QIPGRILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLRRIVTTCMMKEM 179
Cdd:pfam08668   3 TLPDVALRILALLNDPDSSISDIAELISRDPALTARLLRLANSAYYGLR-RPISTISQAVVLLGLRTVRNLALGISVKRI 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1268824863 180 IDIKPIYFRRFgAHLWRHSLQVAF----LAGELETEEPDTAFMVGLLHDVGKIAIFKLLLDAFNQ 240
Cdd:pfam08668  82 FRGTPPLGFDL-KGFWEHSLACALaarlLARRLGLDDPEEAFLAGLLHDIGKLILLSLLPDKYEE 145
YuxH COG3434
c-di-GMP phosphodiesterase YuxH/PdeH, contains EAL and HDOD domains [Signal transduction ...
 104-222 1.01e-15

c-di-GMP phosphodiesterase YuxH/PdeH, contains EAL and HDOD domains [Signal transduction mechanisms];


Pssm-ID: 442660 [Multi-domain]  Cd Length: 407  Bit Score: 77.53  E-value: 1.01e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 104 RILELDNKLSDPEFDSQDIVVLIQQDPVLSAEVIRICNSAAFRRSeRQITSLQQALVQLGSNRLRRIVTTCMMKEMIDI- 182
Cdd:COG3434   205 TLLQLLNELNKPDADLDEIEEIIKRDPALSYKLLRYVNSAAFGLR-RKITSIRQAIVLLGLRQLRRWLSLLLLASLSDSg 283

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1268824863 183 KPiyfrrfgAHLWRHSLQVAFLAGEL-----ETEEPDTAFMVGLL 222
Cdd:COG3434   284 KP-------PELLETALVRARFCELLaeklgPKEEADEAFLVGLF 321
HDc smart00471
Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic ...
 190-228 5.42e-05

Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).


Pssm-ID: 214679 [Multi-domain]  Cd Length: 124  Bit Score: 42.28  E-value: 5.42e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1268824863  190 FGAHLWRHSLQVAFLAGEL----ETEEPDTAFMVGLLHDVGKI 228
Cdd:smart00471   1 SDYHVFEHSLRVAQLAAALaeelGLLDIELLLLAALLHDIGKP 43
RnaY COG1418
HD superfamily phosphodieaserase, includes HD domain of RNase Y [Translation, ribosomal ...
 176-227 5.97e-05

HD superfamily phosphodieaserase, includes HD domain of RNase Y [Translation, ribosomal structure and biogenesis, General function prediction only];


Pssm-ID: 441028 [Multi-domain]  Cd Length: 191  Bit Score: 43.35  E-value: 5.97e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1268824863 176 MKEMIDIkpIYFRR--FGAHLWRHSLQVAFLAGEL---ETEEPDTAFMVGLLHDVGK 227
Cdd:COG1418     1 LPELIKL--VKYLRtsYGQHDLQHSLRVAKLAGLIaaeEGADVEVAKRAALLHDIGK 55
HDGYP COG2206
HD-GYP domain, c-di-GMP phosphodiesterase class II (or its inactivated variant) [Signal ...
 43-230 1.98e-04

HD-GYP domain, c-di-GMP phosphodiesterase class II (or its inactivated variant) [Signal transduction mechanisms];


Pssm-ID: 441808 [Multi-domain]  Cd Length: 316  Bit Score: 42.65  E-value: 1.98e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863  43 EADELVAAVDATALFYSLLFSVSSQNSGGVANKLEKRVMSDIEQALASPQQIADSVLQIPGRILELDNKLSDPEFDSQDI 122
Cdd:COG2206     2 LLLLLLLLLLLLLLLLLALLLLLLLLLLLLLLLLLLLLLALLALLLLLLLLLALLALLLALLALLLLLLLLLLLLSLLLA 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268824863 123 VVLIQQDPVLSAEVIRICNSAAFRRSERQITSLQQALVQLGSNRLRRIVTTCMMkeMIDIKPIYFRRfgahlwrHSLQVA 202
Cdd:COG2206    82 VALLLAELLLLLAALESLLAELFEELRLGLLEELKKLVEELDELLPDALLALLA--ALDAKDPYTYG-------HSVRVA 152

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1268824863 203 FLAGE------LETEEPDTAFMVGLLHDVGKIAI 230
Cdd:COG2206   153 VLALAlarelgLSEEELEDLGLAALLHDIGKIGI 186
HD pfam01966
HD domain; HD domains are metal dependent phosphohydrolases.
 194-230 2.38e-04

HD domain; HD domains are metal dependent phosphohydrolases.


Pssm-ID: 460398 [Multi-domain]  Cd Length: 110  Bit Score: 39.91  E-value: 2.38e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1268824863 194 LWRHSLQVAFLAGEL----ETEEPDTAFMVGLLHDVGKIAI 230
Cdd:pfam01966   1 RLEHSLRVALLARELaeelGELDRELLLLAALLHDIGKGPF 41
HDc cd00077
Metal dependent phosphohydrolases with conserved 'HD' motif
 193-230 4.78e-04

Metal dependent phosphohydrolases with conserved 'HD' motif


Pssm-ID: 238032 [Multi-domain]  Cd Length: 145  Bit Score: 40.02  E-value: 4.78e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1268824863 193 HLWRHSLQVAFLAGEL------ETEEPDTAFMVGLLHDVGKIAI 230
Cdd:cd00077     2 HRFEHSLRVAQLARRLaeelglSEEDIELLRLAALLHDIGKPGT 45
PRK12705 PRK12705
hypothetical protein; Provisional
 185-227 7.95e-04

hypothetical protein; Provisional


Pssm-ID: 237178 [Multi-domain]  Cd Length: 508  Bit Score: 41.23  E-value: 7.95e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1268824863 185 IYFR-RFGAHLWRHSLQVAFLAGELETE---EPDTAFMVGLLHDVGK 227
Cdd:PRK12705  314 LYFRtSYGQNVLSHSLEVAHLAGIIAAEiglDPALAKRAGLLHDIGK 360
HDIG TIGR00277
HDIG domain; This domain is found in a few known nucleotidyltransferes and in a large number ...
 196-227 4.68e-03

HDIG domain; This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG. This model may annotate homologous domains in which one or more of the His residues is conserved but misaligned, and some probable false-positive hits.


Pssm-ID: 272994 [Multi-domain]  Cd Length: 80  Bit Score: 35.77  E-value: 4.68e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1268824863 196 RHSLQVAFLAGELETE---EPDTAFMVGLLHDVGK 227
Cdd:TIGR00277   7 QHSLEVAKLAEALARElglDVELARRGALLHDIGK 41
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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