Query 005162
Match_columns 711
No_of_seqs 173 out of 329
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 19:04:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005162.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005162hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03110 SBP: SBP domain; Int 100.0 1.1E-36 2.4E-41 262.9 -2.3 78 172-249 1-78 (79)
2 PF10866 DUF2704: Protein of u 66.5 5 0.00011 40.2 2.9 31 586-616 123-160 (168)
3 PF09099 Qn_am_d_aIII: Quinohe 65.8 8.5 0.00018 34.6 3.9 27 679-705 1-27 (81)
4 smart00429 IPT ig-like, plexin 37.0 32 0.00069 29.3 2.7 28 680-707 2-29 (90)
5 cd01180 IPT_plexin_repeat1 Fir 36.6 31 0.00068 30.7 2.7 29 680-708 1-29 (94)
6 PRK07217 replication factor A; 35.7 23 0.00051 38.9 2.1 81 126-214 143-232 (311)
7 PF14901 Jiv90: Cleavage induc 34.9 18 0.00038 33.7 0.9 19 210-228 26-44 (94)
8 PF01833 TIG: IPT/TIG domain; 33.2 50 0.0011 27.1 3.2 26 680-705 1-26 (85)
9 PRK00241 nudC NADH pyrophospha 30.2 19 0.00041 37.9 0.3 37 185-222 92-128 (256)
10 PF09297 zf-NADH-PPase: NADH p 29.1 20 0.00044 26.4 0.2 31 190-221 1-31 (32)
11 COG2816 NPY1 NTP pyrophosphohy 27.7 22 0.00047 38.6 0.2 35 186-221 105-139 (279)
12 cd02969 PRX_like1 Peroxiredoxi 27.7 88 0.0019 29.8 4.3 47 566-612 117-169 (171)
13 cd00102 IPT Immunoglobulin-lik 26.8 67 0.0015 26.8 3.0 29 680-708 1-29 (89)
14 cd01179 IPT_plexin_repeat2 Sec 26.2 59 0.0013 28.2 2.6 28 680-707 1-28 (85)
15 cd00603 IPT_PCSR IPT domain of 25.3 71 0.0015 27.3 2.9 29 680-708 1-29 (90)
16 PF14776 UNC-79: Cation-channe 20.5 65 0.0014 37.8 2.2 13 207-219 286-298 (525)
No 1
>PF03110 SBP: SBP domain; InterPro: IPR004333 The SBP plant protein domain is a sequence specific DNA-binding domain []. Proteins with this domain probably function as transcription factors involved in the control of early flower development. The domain contains 10 conserved cysteine and histidine residues that probably are zinc ligands.; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 1UL4_A 1WJ0_A 1UL5_A.
Probab=100.00 E-value=1.1e-36 Score=262.90 Aligned_cols=78 Identities=65% Similarity=1.119 Sum_probs=63.1
Q ss_pred CcccCCChhhhccchhhhccccccccccCCcEEeeCCcchhhhhhhccccCCCCccCccchHHHHHhHHHHhhccCCC
Q 005162 172 MCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRRRRKTQP 249 (711)
Q Consensus 172 ~CQVdGC~~dLs~~k~YhrRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~L~eFDg~kRSCR~rLa~Hn~RRRk~qp 249 (711)
+||||||++||+.+|.||+||||||.|+||++|+++|..+||||||+|||+|+||||+|||||++|++||+||||.++
T Consensus 1 ~CqV~gC~~dL~~~k~Y~rR~rICe~H~ka~~V~~~G~~~RFCQQC~rfh~l~eFdg~kRSCr~~L~~h~~RRr~~~~ 78 (79)
T PF03110_consen 1 RCQVDGCGADLSGAKEYHRRYRICEEHAKAPVVVVDGVEQRFCQQCGRFHPLSEFDGGKRSCRARLARHNERRRKRQQ 78 (79)
T ss_dssp C-SSTTEE-EETS--SSCCCTT--HHHHTHSEEEETTEEEEE-TTTSSEEETTCB-SSTTSBSTTTT-SSS---S-S-
T ss_pred CCcCCCCCcchhhhHHHhhccCcchhhcCCCeEEECChhHHHHHHHHcCCCHHHHcchhhhHHHHHHHHHHHhccccC
Confidence 599999999999999999999999999999999999999999999999999999999999999999999999999865
No 2
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=66.48 E-value=5 Score=40.25 Aligned_cols=31 Identities=32% Similarity=0.713 Sum_probs=25.0
Q ss_pred hhHHHHHHHhcCCCc-------cccccccCCceEEeee
Q 005162 586 TLRKEIYNWLSNSPS-------EMESYIRPGCVILSLY 616 (711)
Q Consensus 586 ~LR~QI~~WLs~~P~-------dmEgYIRPGCviLTIy 616 (711)
.++.+|++.|.+.-. .--|||.|.|||+|.-
T Consensus 123 T~kn~vLnVlnn~L~d~~~~~d~~~~yikpnciv~tf~ 160 (168)
T PF10866_consen 123 TFKNAVLNVLNNELSDEANEYDTSAGYIKPNCIVLTFN 160 (168)
T ss_pred HHHHHHHHHHhhhccccccccccccCccCCCeEEEeee
Confidence 578899999987554 2469999999999963
No 3
>PF09099 Qn_am_d_aIII: Quinohemoprotein amine dehydrogenase, alpha subunit domain III; InterPro: IPR015183 This domain is predominantly found in the prokaryotic protein quinohemoprotein amine dehydrogenase, adopting an immunoglobulin-like beta-sandwich fold, with seven strands arranged into two beta sheets; the fold is possibly related to the immunoglobulin and/or fibronectin type III superfamilies. The precise function of this domain has not, as yet, been defined []. ; PDB: 1JMZ_A 1JMX_A 1PBY_A 1JJU_A.
Probab=65.85 E-value=8.5 Score=34.56 Aligned_cols=27 Identities=30% Similarity=0.646 Sum_probs=25.1
Q ss_pred CCeeeEecceeEecCCeeEEEEEeeeC
Q 005162 679 SPELISVSPLAVVGGQELSFKLRGRNL 705 (711)
Q Consensus 679 ~P~I~sV~PiAv~ag~~~~f~v~G~NL 705 (711)
.|+|..|+|-.+.+|.++++++-|.||
T Consensus 1 ~p~i~aV~P~~lkaG~~t~vti~Gt~L 27 (81)
T PF09099_consen 1 APTILAVSPAGLKAGEETTVTIVGTGL 27 (81)
T ss_dssp SSEEEEEESSEEETTCEEEEEEEEES-
T ss_pred CCeEEEECchhccCCCeEEEEEEecCc
Confidence 489999999999999999999999999
No 4
>smart00429 IPT ig-like, plexins, transcription factors.
Probab=37.02 E-value=32 Score=29.33 Aligned_cols=28 Identities=25% Similarity=0.363 Sum_probs=24.3
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeCCC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNLTN 707 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL~~ 707 (711)
|+|..|.|......--+.++|+|.||..
T Consensus 2 P~I~~i~P~~g~~~GGt~iti~G~nf~~ 29 (90)
T smart00429 2 PVITRISPTSGPVSGGTEITLCGKNLDS 29 (90)
T ss_pred CEEEEEccCcCcCCCCeEEEEeeecCCc
Confidence 8999999988887666699999999975
No 5
>cd01180 IPT_plexin_repeat1 First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=36.63 E-value=31 Score=30.65 Aligned_cols=29 Identities=21% Similarity=0.175 Sum_probs=26.7
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeCCCC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNLTNL 708 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL~~p 708 (711)
|+|..|+|.--+..--+.++++|.||...
T Consensus 1 P~I~~i~P~~Gp~~GGT~vTI~G~nl~~~ 29 (94)
T cd01180 1 PVITEFFPLSGPLEGGTRLTICGSNLGLR 29 (94)
T ss_pred CeeEEEeCCCCCCCCCEEEEEEEEcCCCC
Confidence 78999999999988899999999999875
No 6
>PRK07217 replication factor A; Reviewed
Probab=35.65 E-value=23 Score=38.87 Aligned_cols=81 Identities=16% Similarity=0.219 Sum_probs=47.3
Q ss_pred CCCCcccccCCCcccccccCCCCCCCCC-CCCcccccCCCCCCCCCCCcccCCChhhhccchhhhccccccccccCCcE-
Q 005162 126 EDDGRLDLNLGGGLTAVDVEQPEPPVVT-SKPNKRVRSGSPGTAPYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTK- 203 (711)
Q Consensus 126 ~~~~~l~l~lgg~~~~~~~~~~~~~~~~-~~~~kr~R~g~~g~~~~~~CQVdGC~~dLs~~k~YhrRhrVCe~H~kA~~- 203 (711)
+-.+.++||||..+......+..+.... .......=.-++|++-..+|-.+||+.-|+. -.|+.|=+..-
T Consensus 143 ey~G~~~lnlg~~t~I~~~de~IeV~~~~vei~G~lVdi~~GsglI~rCP~~~C~Rvl~~--------g~C~~HG~ve~~ 214 (311)
T PRK07217 143 EYQGRFSVKLNRTTSIEELDEDIEVGDDEVEVEGALVDIQSGSGLIKRCPEEDCTRVLQN--------GRCSEHGKVEGE 214 (311)
T ss_pred eECCEEEEEeCCceEEEeCCCCccccCccccceeEEEEEeCCCCCeecCCccccCccccC--------CCCCCCCCcCCc
Confidence 4457899999987655532332111111 1111111123456677889999999999955 58999987652
Q ss_pred -------EeeCCcchhhh
Q 005162 204 -------ALVGKQMQRFC 214 (711)
Q Consensus 204 -------V~v~G~~qRFC 214 (711)
|+=+|.....|
T Consensus 215 ~DLrik~vlDDGt~~~~~ 232 (311)
T PRK07217 215 FDLRIKGVLDDGEEVQEV 232 (311)
T ss_pred eeeEEEEEEECCCCeEEE
Confidence 33466554443
No 7
>PF14901 Jiv90: Cleavage inducing molecular chaperone
Probab=34.86 E-value=18 Score=33.65 Aligned_cols=19 Identities=42% Similarity=0.753 Sum_probs=15.4
Q ss_pred chhhhhhhccccCCCCccC
Q 005162 210 MQRFCQQCSRFHPLSEFDE 228 (711)
Q Consensus 210 ~qRFCQQCsrFH~L~eFDg 228 (711)
.-||||+|..+|+-.+=|.
T Consensus 26 ~AR~C~~C~~~H~Ak~gDi 44 (94)
T PF14901_consen 26 AARYCQDCKIRHPAKEGDI 44 (94)
T ss_pred hhHhHHHhhhhcccccCCe
Confidence 5699999999998766543
No 8
>PF01833 TIG: IPT/TIG domain; InterPro: IPR002909 This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. The Ron tyrosine kinase receptor shares with the members of its subfamily (Met and Sea) a unique functional feature: the control of cell dissociation, motility, and invasion of extracellular matrices (scattering) [].; GO: 0005515 protein binding; PDB: 3HRP_A 1UAD_D 3MLP_E 9CGT_A 3CGT_A 6CGT_A 4CGT_A 1CGT_A 7CGT_A 1CGU_A ....
Probab=33.23 E-value=50 Score=27.10 Aligned_cols=26 Identities=23% Similarity=0.340 Sum_probs=23.5
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNL 705 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL 705 (711)
|.|.+|.|-.-.......+.|.|.||
T Consensus 1 P~I~si~P~~~~~~gg~~ItI~G~~f 26 (85)
T PF01833_consen 1 PVITSISPNSGSISGGTNITITGSNF 26 (85)
T ss_dssp SEEEEEESSEEETTCTSEEEEEEESS
T ss_pred CEEEEEECCeEecCCCEEEEEEEEee
Confidence 78999999888887789999999999
No 9
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=30.19 E-value=19 Score=37.90 Aligned_cols=37 Identities=14% Similarity=0.372 Sum_probs=28.3
Q ss_pred chhhhccccccccccCCcEEeeCCcchhhhhhhccccC
Q 005162 185 AKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHP 222 (711)
Q Consensus 185 ~k~YhrRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~ 222 (711)
+-.+|++||-|..+-....+.. +...|.|..|+..|-
T Consensus 92 l~~w~~~~~fC~~CG~~~~~~~-~~~~~~C~~c~~~~y 128 (256)
T PRK00241 92 LAEFYRSHRFCGYCGHPMHPSK-TEWAMLCPHCRERYY 128 (256)
T ss_pred HHHHhhcCccccccCCCCeecC-CceeEECCCCCCEEC
Confidence 4578999999988777655544 455689999997773
No 10
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=29.10 E-value=20 Score=26.35 Aligned_cols=31 Identities=23% Similarity=0.460 Sum_probs=16.8
Q ss_pred ccccccccccCCcEEeeCCcchhhhhhhcccc
Q 005162 190 RRHKVCELHSKSTKALVGKQMQRFCQQCSRFH 221 (711)
Q Consensus 190 rRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH 221 (711)
++||-|.. .-++++.+.+...|-|+.|+..|
T Consensus 1 ~~~rfC~~-CG~~t~~~~~g~~r~C~~Cg~~~ 31 (32)
T PF09297_consen 1 RNHRFCGR-CGAPTKPAPGGWARRCPSCGHEH 31 (32)
T ss_dssp HTTSB-TT-T--BEEE-SSSS-EEESSSS-EE
T ss_pred CCCcccCc-CCccccCCCCcCEeECCCCcCEe
Confidence 35677744 45566666666778888887654
No 11
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=27.70 E-value=22 Score=38.60 Aligned_cols=35 Identities=20% Similarity=0.471 Sum_probs=28.6
Q ss_pred hhhhccccccccccCCcEEeeCCcchhhhhhhcccc
Q 005162 186 KDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFH 221 (711)
Q Consensus 186 k~YhrRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH 221 (711)
-.+|++||.|. ++..+.....|...|-|++|+.-|
T Consensus 105 ~~w~~~~RFCg-~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 105 LEWYRSHRFCG-RCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred HHHHhhCcCCC-CCCCcCccccCceeeeCCCCCCcc
Confidence 46799999995 566777777787889999999766
No 12
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=27.65 E-value=88 Score=29.76 Aligned_cols=47 Identities=21% Similarity=0.405 Sum_probs=33.8
Q ss_pred CccceeEEE-ecCCCCCC-----CchhhHHHHHHHhcCCCccccccccCCceE
Q 005162 566 DCTGRIIFK-LFDKDPSQ-----FPGTLRKEIYNWLSNSPSEMESYIRPGCVI 612 (711)
Q Consensus 566 ~rT~RIsFK-LF~k~P~d-----fP~~LR~QI~~WLs~~P~dmEgYIRPGCvi 612 (711)
++.|||++. .++..... =...|++.|..||+......|--+=+||.+
T Consensus 117 d~~G~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~ 169 (171)
T cd02969 117 DPDGKLVYRGRIDDSRPGNDPPVTGRDLRAALDALLAGKPVPVPQTPSIGCSI 169 (171)
T ss_pred CCCCeEEEeecccCCcccccccccHHHHHHHHHHHHcCCCCCccccCCCCccc
Confidence 467888864 11111111 124699999999999999999999999975
No 13
>cd00102 IPT Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor receptors), as well as, cyclodextrin glycosyltransferase and similar enzymes. Although they are involved in DNA binding in transcription factors, their function in other proteins is unknown. In these transcription factors, IPTs form homo- or heterodimers with the exception of the nuclear factor of activated Tcells (NFAT) transcription factors which are mainly monomers.
Probab=26.78 E-value=67 Score=26.81 Aligned_cols=29 Identities=21% Similarity=0.249 Sum_probs=25.1
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeCCCC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNLTNL 708 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL~~p 708 (711)
|+|..|.|..-...--+.++|+|.||...
T Consensus 1 P~I~~i~P~~g~~~GGt~itI~G~~f~~~ 29 (89)
T cd00102 1 PVITSISPSSGPVSGGTEVTITGSNFGSG 29 (89)
T ss_pred CEEeEEECCcCCCCCCeEEEEEEECCCCC
Confidence 78999999998887788999999998653
No 14
>cd01179 IPT_plexin_repeat2 Second repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=26.21 E-value=59 Score=28.20 Aligned_cols=28 Identities=21% Similarity=0.357 Sum_probs=25.6
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeCCC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNLTN 707 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL~~ 707 (711)
|.|.+|.|..-+..--+.++++|.||..
T Consensus 1 P~I~~i~P~~Gp~~GGT~vtI~G~~~~~ 28 (85)
T cd01179 1 PSITSLSPSYGPQSGGTRLTITGKHLNA 28 (85)
T ss_pred CeeeEEcCCCCCCCCCEEEEEEEECCCC
Confidence 7899999999988889999999999964
No 15
>cd00603 IPT_PCSR IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the macrophage-stimulating receptors and of fibrocystin. Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT_PCSR domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=25.35 E-value=71 Score=27.30 Aligned_cols=29 Identities=24% Similarity=0.276 Sum_probs=25.8
Q ss_pred CeeeEecceeEecCCeeEEEEEeeeCCCC
Q 005162 680 PELISVSPLAVVGGQELSFKLRGRNLTNL 708 (711)
Q Consensus 680 P~I~sV~PiAv~ag~~~~f~v~G~NL~~p 708 (711)
|+|..|+|..-...--+.++++|.||..-
T Consensus 1 P~I~~i~P~~g~~~Ggt~vtI~G~~f~~~ 29 (90)
T cd00603 1 PVITSISPSSGPLSGGTRLTITGSNLGSG 29 (90)
T ss_pred CeEEEEcCCCCCCCCCeEEEEEEECCCCC
Confidence 78999999998888889999999998754
No 16
>PF14776 UNC-79: Cation-channel complex subunit UNC-79
Probab=20.47 E-value=65 Score=37.80 Aligned_cols=13 Identities=46% Similarity=1.007 Sum_probs=11.5
Q ss_pred CCcchhhhhhhcc
Q 005162 207 GKQMQRFCQQCSR 219 (711)
Q Consensus 207 ~G~~qRFCQQCsr 219 (711)
++++.|+||||..
T Consensus 286 gn~PiRlC~~Ch~ 298 (525)
T PF14776_consen 286 GNRPIRLCQQCHS 298 (525)
T ss_pred CCCcchhHHHHhh
Confidence 7889999999973
Done!