Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
ID Alignment Graph Length
Definition
E-value Query 78
pfam01026 255
pfam01026, TatD_DNase, TatD related DNase
1e-05 COG0084 256
COG0084, TatD, Mg-dependent DNase [DNA replication
6e-05 cd01310 251
cd01310, TatD_DNAse, TatD like proteins; E
1e-04 TIGR00010 252
TIGR00010, TIGR00010, hydrolase, TatD family
2e-04
>gnl|CDD|216250 pfam01026, TatD_DNase, TatD related DNase
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Score = 40.3 bits (95), Expect = 1e-05
Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 24 SGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKL--PIHVRHLV 76
SG + +++ L+ ++ E+P+DR+LVE+DAP+L P K P +V ++
Sbjct: 177 SGIVTFKNAK-KLREVVA--EIPLDRLLVETDAPYLAPVPYRGKRNEPAYVPYVA 228
This family of proteins are related to a large superfamily of metalloenzymes. TatD, a member of this family has been shown experimentally to be a DNase enzyme. Length = 255
>gnl|CDD|223162 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination, and repair]
Back Show alignment and domain information
Score = 38.7 bits (91), Expect = 6e-05
Identities = 17/35 (48%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 44 ELPMDRILVESDAPFLYPNARAAK--LPIHVRHLV 76
ELP+DR+L+E+DAP+L P K P +VRH+
Sbjct: 194 ELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVA 228
>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins; E
Back Show alignment and domain information
Score = 37.6 bits (88), Expect = 1e-04
Identities = 16/53 (30%), Positives = 33/53 (62%), Gaps = 5/53 (9%)
Query: 24 SGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKL--PIHVRH 74
SG + ++ L+ +++ E+P++R+L+E+D+P+L P K P +V+H
Sbjct: 173 SGIVTFKNANE-LREVVK--EIPLERLLLETDSPYLAPVPFRGKRNEPAYVKH 222
coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity. Length = 251
>gnl|CDD|232780 TIGR00010, TIGR00010, hydrolase, TatD family
Back Show alignment and domain information
Score = 37.2 bits (87), Expect = 2e-04
Identities = 14/35 (40%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 44 ELPMDRILVESDAPFLYP-NARAAKL-PIHVRHLV 76
++P++R+LVE+D+P+L P R + P VR+ V
Sbjct: 190 KIPLERLLVETDSPYLAPVPYRGKRNEPAFVRYTV 224
PSI-BLAST, starting with a urease alpha subunit, finds a large superfamily of proteins, including a number of different enzymes that act as hydrolases at C-N bonds other than peptide bonds (EC 3.5.-.-), many uncharacterized proteins, and the members of this family. Several genomes have multiple paralogs related to this family. However, a set of 17 proteins can be found, one each from 17 of the first 20 genomes, such that each member forms a bidirectional best hit across genomes with all other members of the set. This core set (and one other near-perfect member), but not the other paralogs, form the seed for this model. Additionally, members of the seed alignment and all trusted hits, but not all paralogs, have a conserved motif DxHxH near the amino end. The member from E. coli was recently shown to have DNase activity [Unknown function, Enzymes of unknown specificity]. Length = 252
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
78
COG0084 256
TatD Mg-dependent DNase [DNA replication, recombin
99.93 PRK10425 258
DNase TatD; Provisional
99.87 PRK11449 258
putative deoxyribonuclease YjjV; Provisional
99.86 PRK10812 265
putative DNAse; Provisional
99.83 PF01026 255
TatD_DNase: TatD related DNase The Pfam entry find
99.8 KOG3020|consensus 296
99.61 cd00530 293
PTE Phosphotriesterase (PTE) catalyzes the hydroly
99.39 TIGR00010 252
hydrolase, TatD family. Several genomes have multi
99.3 cd01310 251
TatD_DNAse TatD like proteins; E.coli TatD is a cy
99.16 TIGR03583 365
EF_0837 probable amidohydrolase EF_0837/AHA_3915.
97.56 cd01295 422
AdeC Adenine deaminase (AdeC) directly deaminates
96.09 cd01307 338
Met_dep_hydrolase_B Metallo-dependent hydrolases,
92.09 cd01292 275
metallo-dependent_hydrolases Superfamily of metall
90.98
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
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Probab=99.93 E-value=2.2e-26 Score=167.26 Aligned_cols=73 Identities=33% Similarity=0.441 Sum_probs=67.8
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCCC--Ccccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAA--KLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~~--neP~~l~~v~~ 77 (78)
|||+|+ +.|+|+++++ ||||||+|.+ ||++++++|++++ .||+||||+||||||++|.|+++ |+|++|.+|++
T Consensus 154 ~HcFsG-s~e~a~~~~d~G~yisisG~i-tfk~a~~~~ev~~--~iPldrLL~ETDsPyl~P~p~rGkrNeP~~v~~v~~ 229 (256)
T COG0084 154 LHCFSG-SAEEARKLLDLGFYISISGIV-TFKNAEKLREVAR--ELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVAE 229 (256)
T ss_pred EEccCC-CHHHHHHHHHcCeEEEECcee-ecCCcHHHHHHHH--hCCHhHeEeccCCCCCCCcCCCCCCCCchHHHHHHH
Confidence 699999 5899999999 9999999954 8999999999999 99999999999999999998643 99999999986
>PRK10425 DNase TatD; Provisional
Back Show alignment and domain information
Probab=99.87 E-value=7.8e-23 Score=147.65 Aligned_cols=74 Identities=26% Similarity=0.523 Sum_probs=66.1
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCC-----C-CCcccchh
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNAR-----A-AKLPIHVR 73 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~-----~-~neP~~l~ 73 (78)
+|++|+ +.++|+++++ ||||||||.+++++++.++|++++ .+|+||||+||||||++|.++ + +|+|++|+
T Consensus 151 ~H~fsG-~~~~~~~~l~~G~~~si~g~i~~~~~~~~~~~~~~--~ipldrlLlETDaP~l~P~~~~~~~~~~~n~P~~i~ 227 (258)
T PRK10425 151 LHCFTG-TREEMQACLARGLYIGITGWVCDERRGLELRELLP--LIPAERLLLETDAPYLLPRDLTPKPASRRNEPAFLP 227 (258)
T ss_pred EEecCC-CHHHHHHHHHCCCEEEECceeecccccHHHHHHHH--hCChHHEEEeccCCCCCCCCcCCCCCCCCCCcHHHH
Confidence 599998 5899999999 999999998766676778999999 999999999999999999764 2 39999999
Q ss_pred hhhc
Q psy4672 74 HLVM 77 (78)
Q Consensus 74 ~v~~ 77 (78)
++++
T Consensus 228 ~v~~ 231 (258)
T PRK10425 228 HILQ 231 (258)
T ss_pred HHHH
Confidence 9875
>PRK11449 putative deoxyribonuclease YjjV; Provisional
Back Show alignment and domain information
Probab=99.86 E-value=5.1e-22 Score=143.13 Aligned_cols=73 Identities=19% Similarity=0.228 Sum_probs=66.0
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Ccccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~~l~~v~~ 77 (78)
+|++|+ +.++|+++++ ||||||+|.+ ++++++++|++++ .+|+||||+|||+||++|.+++ + |+|.++..+++
T Consensus 156 ~H~fsG-~~~~a~~~l~~G~~iS~~g~i-t~~~~~~~~~~~~--~ipldriL~ETD~P~l~p~~~~~~~n~p~~~~~~~~ 231 (258)
T PRK11449 156 VHGFSG-SLQQAERFVQLGYKIGVGGTI-TYPRASKTRDVIA--KLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFD 231 (258)
T ss_pred EEcCCC-CHHHHHHHHHCCCEEEeCccc-cccCcHHHHHHHH--hCChhhEEEecCCCCCCCCCCCCCCCCChHHHHHHH
Confidence 699997 5899999999 9999999965 8888899999999 9999999999999999988754 3 99999999874
>PRK10812 putative DNAse; Provisional
Back Show alignment and domain information
Probab=99.83 E-value=4.1e-21 Score=139.00 Aligned_cols=73 Identities=27% Similarity=0.408 Sum_probs=65.7
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Ccccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~~l~~v~~ 77 (78)
+|++|. +.++++++++ |+||||+|.+ ++++++.++++++ .+|+||||+|||+||++|.+++ + |+|.+|..+++
T Consensus 154 ~H~fsG-~~~~a~~~~~~G~~is~~g~~-t~~~~~~~~~~~~--~ipldrlLlETD~P~~~p~~~~g~~n~P~~i~~v~~ 229 (265)
T PRK10812 154 LHCFTE-DRETAGKLLDLGFYISFSGIV-TFRNAEQLRDAAR--YVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAE 229 (265)
T ss_pred EEeecC-CHHHHHHHHHCCCEEEECeee-ecCccHHHHHHHH--hCChhhEEEecCCCCCCCcCCCCCCCCcHHHHHHHH
Confidence 599975 6999999999 9999999965 8888889999999 9999999999999999998864 3 99999999774
>PF01026 TatD_DNase: TatD related DNase The Pfam entry finds members not in the Prosite definition
Back Show alignment and domain information
Probab=99.80 E-value=4e-20 Score=131.64 Aligned_cols=73 Identities=27% Similarity=0.410 Sum_probs=58.8
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Ccccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~~l~~v~~ 77 (78)
+|++++ +.++++++++ |+||||+|.+ +++++++.+++++ .+|+||||+|||+||+.|.+++ + |+|.+|+.+++
T Consensus 154 ~H~f~g-~~~~~~~~~~~g~~~S~~~~~-~~~~~~~~~~~~~--~ip~drillETD~P~~~~~~~~~~~~~p~~i~~~~~ 229 (255)
T PF01026_consen 154 FHCFSG-SPEEAKKFLDLGCYFSFSGAI-TFKNSKKVRELIK--AIPLDRILLETDAPYLAPDPYRGKPNEPSNIPKVAQ 229 (255)
T ss_dssp ETT--S--HHHHHHHHHTTEEEEEEGGG-GSTTSHHHHHHHH--HS-GGGEEEE-BTTSSECTTSTTSE--GGGHHHHHH
T ss_pred EecCCC-CHHHHHHHHhcCceEEecccc-cccccHHHHHHHh--cCChhhEEEcCCCCcCCccccCCCCCChHHHHHHHH
Confidence 599888 4899999999 9999999975 6766788999999 9999999999999999997765 3 99999998875
; InterPro: IPR001130 This family of proteins are related to a large superfamily of metalloenzymes []. TatD, a member of this family has been shown experimentally to be a DNase enzyme []. Allantoinase 3.5.2.5 from EC, N-isopropylammelide isopropyl amidohydrolase 3.5.1 from EC and the SCN1 protein from fission yeast belong to this family.; GO: 0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters; PDB: 3E2V_B 1XWY_A 3GUW_D 3RCM_A 1ZZM_A 2XIO_A 1J6O_A 2GZX_A 3IPW_A 2Y1H_A ....
>KOG3020|consensus
Back Show alignment and domain information
Probab=99.61 E-value=4.3e-16 Score=115.77 Aligned_cols=70 Identities=24% Similarity=0.372 Sum_probs=58.9
Q ss_pred CCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCC----------------
Q psy4672 2 HRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNAR---------------- 64 (78)
Q Consensus 2 ~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~---------------- 64 (78)
|++-+ +.+.++++++ |+||||+|.+ .+.. .-.++++ .||+||||+||||||+.|...
T Consensus 180 HsFtG-s~e~~~~~lk~~~yig~~g~~--~k~~-e~~~vlr--~iP~erlllETDsP~~~pk~~~~~~~~~~~~~~~~~~ 253 (296)
T KOG3020|consen 180 HSFTG-SAEEAQKLLKLGLYIGFTGCS--LKTE-ENLEVLR--SIPLERLLLETDSPYCGPKPSSHAGPKYVKTLFSESY 253 (296)
T ss_pred EeccC-CHHHHHHHHHccEEeccccee--eech-hhHHHHh--hCCHhHeeeccCCccccCCccccccchhhhhhhhhhc
Confidence 66655 8999999999 9999999954 3333 4568899 999999999999999999872
Q ss_pred ---CCCcccchhhhhc
Q psy4672 65 ---AAKLPIHVRHLVM 77 (78)
Q Consensus 65 ---~~neP~~l~~v~~ 77 (78)
++|+|+++.++++
T Consensus 254 ~~~~~neP~~~~~~~e 269 (296)
T KOG3020|consen 254 PLKGRNEPCNVLQVAE 269 (296)
T ss_pred cccccCCchHHHHHHH
Confidence 3599999999876
>cd00530 PTE Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon
Back Show alignment and domain information
Probab=99.39 E-value=5.5e-13 Score=95.25 Aligned_cols=73 Identities=16% Similarity=0.003 Sum_probs=59.5
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccC---------CchHHHhhhhcCCCCCCceEeecCCCCCCCCCC--CCCc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDS---------SEAGLQGMLESGELPMDRILVESDAPFLYPNAR--AAKL 68 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~---------~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~--~~ne 68 (78)
.|++..++.+.++++++ |+||||++.. +++ +.+.++++++ .+|+||||+|||+||+.|.+. .+|.
T Consensus 183 ~H~~~~~~~~~~~~~~~~G~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~--~~~~d~ill~TD~p~~~~~~~~~~~~~ 259 (293)
T cd00530 183 GHLDRNDDPDYLLKIAALGAYLEFDGIG-KDKIFGYPSDETRADAVKALID--EGYGDRLLLSHDVFRKSYLEKRYGGHG 259 (293)
T ss_pred eCCCCCCCHHHHHHHHhCCCEEEeCCCC-cccccCCCCHHHHHHHHHHHHH--CCCcCCEEEeCCcCchhhhhhccCCCC
Confidence 38874457899999999 9999999954 454 5667999999 999999999999999987643 3499
Q ss_pred ccchhhhh
Q psy4672 69 PIHVRHLV 76 (78)
Q Consensus 69 P~~l~~v~ 76 (78)
|.++..++
T Consensus 260 ~~~~~~~~ 267 (293)
T cd00530 260 YDYILTRF 267 (293)
T ss_pred hHHHHHHH
Confidence 99986544
PTE exists as a homodimer with one active site per monomer. The active site is located next to a binuclear metal center, at the C-terminal end of a TIM alpha- beta barrel motif. The native enzyme contains two zinc ions at the active site however these can be replaced with other metals such as cobalt, cadmium, nickel or manganese and the enzyme remains active.
>TIGR00010 hydrolase, TatD family
Back Show alignment and domain information
Probab=99.30 E-value=3.6e-12 Score=88.14 Aligned_cols=71 Identities=28% Similarity=0.409 Sum_probs=57.7
Q ss_pred CCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Ccccchhhhh
Q psy4672 2 HRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPIHVRHLV 76 (78)
Q Consensus 2 ~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~~l~~v~ 76 (78)
|..+ ++.+.++++++ |+|+|+++.. ++++.+.++++++ .+|.||||+|||+||+.|...+ + |.|.++..++
T Consensus 151 H~~~-~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~~~~i~--~~~~dril~~TD~p~~~~~~~~~~~~~p~~i~~~~ 224 (252)
T TIGR00010 151 HCFT-GDAELAKKLLDLGFYISISGIV-TFKNAKSLREVVR--KIPLERLLVETDSPYLAPVPYRGKRNEPAFVRYTV 224 (252)
T ss_pred EccC-CCHHHHHHHHHCCCeEeeceeE-ecCCcHHHHHHHH--hCCHHHeEecccCCCCCCCCCCCCCCCChhHHHHH
Confidence 6654 46899999999 9999999854 4555567999999 9999999999999998865432 3 8999988753
Several genomes have multiple paralogs related to this family. However, a set of 17 proteins can be found, one each from 17 of the first 20 genomes, such that each member forms a bidirectional best hit across genomes with all other members of the set. This core set (and one other near-perfect member), but not the other paralogs, form the seed for this model. Additionally, members of the seed alignment and all trusted hits, but not all paralogs, have a conserved motif DxHxH near the amino end. The member from E. coli was recently shown to have DNase activity.
>cd01310 TatD_DNAse TatD like proteins; E
Back Show alignment and domain information
Probab=99.16 E-value=5.7e-11 Score=81.91 Aligned_cols=71 Identities=27% Similarity=0.438 Sum_probs=56.7
Q ss_pred CCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCC-CC-Ccccchhhhh
Q psy4672 2 HRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNAR-AA-KLPIHVRHLV 76 (78)
Q Consensus 2 ~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~-~~-neP~~l~~v~ 76 (78)
|..+ ++.++++++++ |+|||+++.. .+.+...++++++ .+|.||||+|||+||..+... ++ +.|.++..++
T Consensus 151 H~~~-~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~~~~~~--~~~~dril~~TD~p~~~~~~~~~~~~~~~~~~~~~ 224 (251)
T cd01310 151 HCFS-GSAEEAKELLDLGFYISISGIV-TFKNANELREVVK--EIPLERLLLETDSPYLAPVPFRGKRNEPAYVKHVA 224 (251)
T ss_pred EccC-CCHHHHHHHHHcCCEEEeeeee-ccCCCHHHHHHHH--hCChHHEEEcccCCCCCCCCCCCCCCCChhHHHHH
Confidence 6555 45789999999 9999999965 3444456899999 999999999999999987652 33 8888877664
coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.
>TIGR03583 EF_0837 probable amidohydrolase EF_0837/AHA_3915
Back Show alignment and domain information
Probab=97.56 E-value=0.0001 Score=54.45 Aligned_cols=59 Identities=14% Similarity=0.077 Sum_probs=40.3
Q ss_pred HHHHHHhc-CceeEec-CcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCCCCcccc-hhhhhc
Q psy4672 10 EPLNKALL-ILILCWS-GYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKLPIH-VRHLVM 77 (78)
Q Consensus 10 e~a~~~l~-G~yisi~-g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~~neP~~-l~~v~~ 77 (78)
+.+++.++ |+|++++ |. .++. -+....++ . +++++|||+|++... ...|.|.+ +..+++
T Consensus 225 ~~~~~~l~~G~i~d~~hg~-~~~~--~~~~~~~~--~---~~~~~~td~~d~~~~-~~~~gp~~~l~~~~~ 286 (365)
T TIGR03583 225 PSVLEAYNRGVILDVGHGT-ASFS--FHVAEKAK--R---AGIFPDTISTDIYIR-NRINGPVYSLATVMS 286 (365)
T ss_pred HHHHHHHhCeEEEEeCCCC-CCch--HHHHHHHH--h---CCCCCcccccccccC-CCccCccccHHHHHH
Confidence 88888899 9999999 64 4553 12222233 2 578899999998422 23488988 777654
Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. These proteins resemble aminohydrolases (see pfam01979), including dihydroorotases. The function is unknown.
>cd01295 AdeC Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine
Back Show alignment and domain information
Probab=96.09 E-value=0.012 Score=44.83 Aligned_cols=47 Identities=13% Similarity=0.056 Sum_probs=35.7
Q ss_pred CHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCC---CCceEeecCCCCCC
Q psy4672 8 MLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELP---MDRILVESDAPFLY 60 (78)
Q Consensus 8 ~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iP---ldrlllETDsP~~~ 60 (78)
+.+++.+.++ |+|+++.+... +..++++++ .++ .++++++||+|...
T Consensus 165 ~~eea~e~l~~G~~i~i~~g~~----~~~~~~~~~--~l~~~~~~~i~l~TD~~~~~ 215 (422)
T cd01295 165 TGEEALEKLRLGMYVMLREGSI----AKNLEALLP--AITEKNFRRFMFCTDDVHPD 215 (422)
T ss_pred cHHHHHHHHHCCCEEEEECccc----HhhHHHHHH--hhhhccCCeEEEEcCCCCch
Confidence 4688888889 99999985332 245677778 887 69999999998543
This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source in bacteria and archea.
>cd01307 Met_dep_hydrolase_B Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site
Back Show alignment and domain information
Probab=92.09 E-value=0.24 Score=36.32 Aligned_cols=53 Identities=19% Similarity=0.119 Sum_probs=29.2
Q ss_pred HHHHHHHhc-CceeEec-Cc-ccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCCCCcccc
Q psy4672 9 LEPLNKALL-ILILCWS-GY-ICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKLPIH 71 (78)
Q Consensus 9 ~e~a~~~l~-G~yisi~-g~-~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~~neP~~ 71 (78)
.+.++++++ |+||+++ |. ..+++ ..+++++.|-+|. .+.||.|+ .. ..|.|.+
T Consensus 208 ~~~~~~~~~~G~~~d~~~G~~~~~~~---~~~~l~~~G~~~~---~lstD~~~---~~-~~~~p~~ 263 (338)
T cd01307 208 LPLVRRARERGVIFDVGHGTASFSFR---VARAAIAAGLLPD---TISSDIHG---RN-RTNGPVY 263 (338)
T ss_pred HHHHHHHHhCCEEEEeCCCCCchhHH---HHHHHHHCCCCCe---eecCCccc---cC-CCCCccc
Confidence 378899999 9999988 42 22332 3445555333332 24555542 21 1367766
The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The function of this subgroup is unknown.
>cd01292 metallo-dependent_hydrolases Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site
Back Show alignment and domain information
Probab=90.98 E-value=0.85 Score=30.50 Aligned_cols=53 Identities=23% Similarity=0.109 Sum_probs=37.2
Q ss_pred CCCCCCCHHHHHHHhc-CceeEecCccccc-----CCchHHHhhhhcCCCCCCceEeecCCCCC
Q psy4672 2 HRSSIPMLEPLNKALL-ILILCWSGYICKD-----SSEAGLQGMLESGELPMDRILVESDAPFL 59 (78)
Q Consensus 2 ~~~~~~~~e~a~~~l~-G~yisi~g~~~~~-----~~~~~~r~~~~~~~iPldrlllETDsP~~ 59 (78)
|++.. +.+.++.+.+ |.++++++....+ .....++++++.| .++++.||+|..
T Consensus 180 H~~~~-~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g----~~~~lgTD~~~~ 238 (275)
T cd01292 180 HVSHL-DPELLELLKEAGVSLEVCPLSNYLLGRDGEGAEALRRLLELG----IRVTLGTDGPPH 238 (275)
T ss_pred CCccC-CHHHHHHHHHcCCeEEECCcccccccCCcCCcccHHHHHHCC----CcEEEecCCCCC
Confidence 66655 4678888888 9999999853221 1123467777744 799999999875
The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The family includes urease alpha, adenosine deaminase, phosphotriesterase dihydroorotases, allantoinases, hydantoinases, AMP-, adenine and cytosine deaminases, imidazolonepropionase, aryldialkylphosphatase, chlorohydrolases, formylmethanofuran dehydrogenases and others.
Homologous Structure Domains
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
Probability Query 78
d1yixa1 265
Putative deoxyribonuclease YcfH {Escherichia coli
99.88 d1j6oa_ 260
Hypothetical protein TM0667 {Thermotoga maritima [
99.88 d1xwya1 260
Deoxyribonuclease TatD (MttC) {Escherichia coli [T
99.86 d1zzma1 259
Putative deoxyribonuclease YjjV {Escherichia coli
99.85 d1bf6a_ 291
Phosphotriesterase homology protein {Escherichia c
99.52 d1i0da_ 331
Phosphotriesterase (parathion hydrolase, PTE) {Pse
98.32 d2ffia1 271
Putative 2-pyrone-4,6-dicarboxylic acid hydrolase
83.67
>d1yixa1 c.1.9.12 (A:1-265) Putative deoxyribonuclease YcfH {Escherichia coli [TaxId: 562]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: TatD Mg-dependent DNase-like
domain: Putative deoxyribonuclease YcfH
species: Escherichia coli [TaxId: 562]
Probab=99.88 E-value=1.3e-23 Score=147.28 Aligned_cols=73 Identities=27% Similarity=0.410 Sum_probs=66.1
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC--CCcccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA--AKLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~--~neP~~l~~v~~ 77 (78)
+||+++ +.++|+++++ ||||||+|.+ +++++..+|++++ .+|+||||+||||||++|.+.+ +|+|++|+.+++
T Consensus 154 ~H~FsG-~~~~a~~~l~~g~~~s~~g~~-~~~~~~~l~~~v~--~iPldrlLlETD~P~~~p~~~~~~~n~P~~i~~~~~ 229 (265)
T d1yixa1 154 LHCFTE-DRETAGKLLDLGFYISFSGIV-TFRNAEQLRDAAR--YVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAE 229 (265)
T ss_dssp ETTCCS-CHHHHHHHHTTTCEEEECGGG-GSTTCHHHHHHHH--HSCGGGEEECCCBTSCCCTTCTTSCCCGGGHHHHHH
T ss_pred EEeecC-ChHHHHHHHHcCCeecCcccc-ccchhHHHHHHHH--hcchhceEeecCCcccCccccCCCCCCcHHHHHHHH
Confidence 599997 6899999999 9999999954 7888888999999 9999999999999999998864 399999999874
>d1j6oa_ c.1.9.12 (A:) Hypothetical protein TM0667 {Thermotoga maritima [TaxId: 2336]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: TatD Mg-dependent DNase-like
domain: Hypothetical protein TM0667
species: Thermotoga maritima [TaxId: 2336]
Probab=99.88 E-value=9.7e-24 Score=148.44 Aligned_cols=73 Identities=22% Similarity=0.299 Sum_probs=66.5
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC--CCcccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA--AKLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~--~neP~~l~~v~~ 77 (78)
+|++++ +.++|+++++ ||||||||.+ +++++++++++++ .+|+||||+||||||++|.+++ +|+|++|..+++
T Consensus 155 ~H~fsG-~~~~~~~~l~~g~~is~~g~~-~~~~~~~~~~~v~--~iPldrlllETD~P~l~p~~~~~~~n~P~~l~~v~~ 230 (260)
T d1j6oa_ 155 IHAFSS-DYEWAKKFIDLGFLLGIGGPV-TYPKNEALREVVK--RVGLEYIVLETDCPFLPPQPFRGKRNEPKYLKYVVE 230 (260)
T ss_dssp ETTCCS-CHHHHHHHHHHTEEEEECGGG-GCTTCHHHHHHHH--HHCGGGEEECCCBTSCCCGGGTTSCCCGGGHHHHHH
T ss_pred eecccc-CHHHHHHHHhCCCceeecccc-ccchHHHHHHHHH--hcccceEEEecCCCCCCCcccCCCCCChHHHHHHHH
Confidence 699997 6899999999 9999999965 7888889999999 9999999999999999999864 399999999875
>d1xwya1 c.1.9.12 (A:1-260) Deoxyribonuclease TatD (MttC) {Escherichia coli [TaxId: 562]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: TatD Mg-dependent DNase-like
domain: Deoxyribonuclease TatD (MttC)
species: Escherichia coli [TaxId: 562]
Probab=99.86 E-value=1.9e-22 Score=141.80 Aligned_cols=74 Identities=23% Similarity=0.532 Sum_probs=64.8
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCC-----CC-Ccccchh
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNAR-----AA-KLPIHVR 73 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~-----~~-neP~~l~ 73 (78)
+|++++ +.++++++++ |+||||+|.++..+++.+++++++ .+|+||||+|||+||++|.+. ++ |+|++|+
T Consensus 151 ~H~f~g-~~~~~~~~~~~g~~~s~~g~~~~~~~~~~~~~~~~--~iPldrlllETD~P~~~p~~~~~~~~~~~NeP~~l~ 227 (260)
T d1xwya1 151 LHCFTG-TREEMQACVAHGIYIGITGWVCDERRGLELRELLP--LIPAEKLLIETDAPYLLPRDLTPKPSSRRNEPAHLP 227 (260)
T ss_dssp ECSCCC-CHHHHHHHHHTTCEEEECGGGGCTTTSHHHHHHGG--GSCGGGEEECCCTTSCCCTTCTTCCCSSCCCGGGHH
T ss_pred hhhhhc-cHHHHHHhhhhccccccCccccchhhHHHHHHHHH--hhhhhheeeecCCCCCCCccccccccCCCCChHHHH
Confidence 599998 5899999999 999999997654455788999999 999999999999999999762 33 9999999
Q ss_pred hhhc
Q psy4672 74 HLVM 77 (78)
Q Consensus 74 ~v~~ 77 (78)
.+++
T Consensus 228 ~v~~ 231 (260)
T d1xwya1 228 HILQ 231 (260)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 9875
>d1zzma1 c.1.9.12 (A:1-259) Putative deoxyribonuclease YjjV {Escherichia coli [TaxId: 562]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: TatD Mg-dependent DNase-like
domain: Putative deoxyribonuclease YjjV
species: Escherichia coli [TaxId: 562]
Probab=99.85 E-value=1.8e-22 Score=141.07 Aligned_cols=73 Identities=19% Similarity=0.239 Sum_probs=65.7
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCcccccCCchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Ccccchhhhhc
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPIHVRHLVM 77 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~~~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~~l~~v~~ 77 (78)
+|++++ +.++++++++ |+||||+|.+ ++++++++|++++ .||+||||+||||||++|.+.+ + |+|+++..+++
T Consensus 156 ~H~f~g-~~~~~~~~l~~g~~~si~~~~-~~~~~~~~~~~v~--~iPldriL~ETD~P~~~~~~~~~~~~~P~~~~~~~~ 231 (259)
T d1zzma1 156 VHGFSG-SLQQAERFVQLGYKIGVGGTI-TYPRASKTRDVIA--KLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFA 231 (259)
T ss_dssp ETTCCS-CHHHHHHHHHTTCEEEECGGG-GCTTTCSHHHHHH--HSCGGGEEECCCBTSSCCTTCTTSCCCGGGHHHHHH
T ss_pred eecccC-CHHHHHHHHHcCCCccccccc-cccchHHHHHHHH--hhccceEEEecCCCCcCCCcCCCCCCchHHHHHHHH
Confidence 599988 5899999999 9999999965 6777888999999 9999999999999999998864 3 99999998875
>d1bf6a_ c.1.9.3 (A:) Phosphotriesterase homology protein {Escherichia coli [TaxId: 562]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: Phosphotriesterase-like
domain: Phosphotriesterase homology protein
species: Escherichia coli [TaxId: 562]
Probab=99.52 E-value=6.9e-15 Score=101.66 Aligned_cols=72 Identities=13% Similarity=0.046 Sum_probs=58.7
Q ss_pred CCC-CCCCCHHHHHHHhc-CceeEecCcccccC------CchHHHhhhhcCCCCCCceEeecCCCCCCCCCCC-C-Cccc
Q psy4672 1 MHR-SSIPMLEPLNKALL-ILILCWSGYICKDS------SEAGLQGMLESGELPMDRILVESDAPFLYPNARA-A-KLPI 70 (78)
Q Consensus 1 ~~~-~~~~~~e~a~~~l~-G~yisi~g~~~~~~------~~~~~r~~~~~~~iPldrlllETDsP~~~p~~~~-~-neP~ 70 (78)
+|| ++ ++.++++++++ |+||||+|.. ++. +.+.++++++ .+|+||||+|||+||+.|.+.. + |.|.
T Consensus 184 ~H~~f~-~~~e~~~~~~~~G~~i~~~g~~-~~~~~~~~~~~~~~~~lv~--~~p~drilleTD~p~~~p~~~~g~~~~~~ 259 (291)
T d1bf6a_ 184 GHCDLK-DNLDNILKMIDLGAYVQFDTIG-KNSYYPDEKRIAMLHALRD--RGLLNRVMLSMDITRRSHLKANGGYGYDY 259 (291)
T ss_dssp CCCCSS-CCHHHHHHHHHTTCEEEECCTT-CTTTSCHHHHHHHHHHHHH--TTCGGGEEECCCCCSGGGSGGGTSCCTTH
T ss_pred cccCCC-CCHHHHHHHHhcCeeEEecccc-cccCCcHHHhHHHHHHHHH--hCCchhEEEecCCCCccccccCCCCCchh
Confidence 487 55 58999999999 9999999854 442 2356899999 9999999999999999988753 3 8888
Q ss_pred chhhhh
Q psy4672 71 HVRHLV 76 (78)
Q Consensus 71 ~l~~v~ 76 (78)
.+..++
T Consensus 260 ~~~~~~ 265 (291)
T d1bf6a_ 260 LLTTFI 265 (291)
T ss_dssp HHHTHH
T ss_pred HHHHHH
Confidence 776664
>d1i0da_ c.1.9.3 (A:) Phosphotriesterase (parathion hydrolase, PTE) {Pseudomonas diminuta [TaxId: 293]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: Phosphotriesterase-like
domain: Phosphotriesterase (parathion hydrolase, PTE)
species: Pseudomonas diminuta [TaxId: 293]
Probab=98.32 E-value=3.4e-07 Score=60.74 Aligned_cols=61 Identities=15% Similarity=0.118 Sum_probs=49.8
Q ss_pred CCCCCCCCHHHHHHHhc-CceeEecCccccc--------------------CCchHHHhhhhcCCCCCCceEeecCCCCC
Q psy4672 1 MHRSSIPMLEPLNKALL-ILILCWSGYICKD--------------------SSEAGLQGMLESGELPMDRILVESDAPFL 59 (78)
Q Consensus 1 ~~~~~~~~~e~a~~~l~-G~yisi~g~~~~~--------------------~~~~~~r~~~~~~~iPldrlllETDsP~~ 59 (78)
.|+++.+..+.++++.+ |+++++.+.. ++ .+.+.+++++. +.++|||+++||.|++
T Consensus 195 ~H~~~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~l~--~g~~d~i~~~tD~p~~ 271 (331)
T d1i0da_ 195 GHSDDTDDLSYLTALAARGYLIGLDHIP-HSAIGLEDNASASALLGIRSWQTRALLIKALID--QGYMKQILVSNDWLFG 271 (331)
T ss_dssp CSGGGCCCHHHHHHHHHTTCEEEECCTT-CCCTTCTTCHHHHHHHCSSCHHHHHHHHHHHHH--TTCGGGEEECCCCCSE
T ss_pred EecCCcchHHHHHHHHhcCCceeeccee-eeccchhhhccccCCccCCChhhhHHHHHHHHH--hcCCCCEEECCCCCCc
Confidence 48888889999999999 9999998732 21 12356788999 9999999999999998
Q ss_pred CCCCC
Q psy4672 60 YPNAR 64 (78)
Q Consensus 60 ~p~~~ 64 (78)
.|...
T Consensus 272 ~p~~~ 276 (331)
T d1i0da_ 272 FSSYV 276 (331)
T ss_dssp ECSSS
T ss_pred ccccc
Confidence 87754
>d2ffia1 c.1.9.15 (A:10-280) Putative 2-pyrone-4,6-dicarboxylic acid hydrolase PP1699 {Pseudomonas putida [TaxId: 303]}
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class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Metallo-dependent hydrolases
family: PP1699/LP2961-like
domain: Putative 2-pyrone-4,6-dicarboxylic acid hydrolase PP1699
species: Pseudomonas putida [TaxId: 303]
Probab=83.67 E-value=0.24 Score=29.92 Aligned_cols=24 Identities=21% Similarity=0.253 Sum_probs=20.9
Q ss_pred HHHhhhhcCCCCCCceEeecCCCCCC
Q psy4672 35 GLQGMLESGELPMDRILVESDAPFLY 60 (78)
Q Consensus 35 ~~r~~~~~~~iPldrlllETDsP~~~ 60 (78)
.++++++ ....||||..||.||..
T Consensus 209 ~l~~~i~--~~g~dRilfGSD~P~~~ 232 (271)
T d2ffia1 209 ALCALEA--HYGAERLMWGSDWPHTQ 232 (271)
T ss_dssp HHHHHHH--HTCGGGEEEECCTTCTT
T ss_pred HHHHHHH--HhCCCcEEEeCCCCCCc
Confidence 5788888 89999999999999854
