Query 008080
Match_columns 578
No_of_seqs 168 out of 315
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 19:12:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008080hhsearch_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 1.6E-37 3.4E-42 262.8 -1.0 78 149-226 1-78 (79)
2 PF10866 DUF2704: Protein of u 74.9 2.5 5.4E-05 41.3 2.8 31 451-481 122-159 (168)
3 PF09099 Qn_am_d_aIII: Quinohe 71.7 5.3 0.00012 34.9 3.8 26 548-573 2-27 (81)
4 smart00429 IPT ig-like, plexin 50.0 17 0.00036 30.3 3.0 28 548-575 2-29 (90)
5 PF01833 TIG: IPT/TIG domain; 46.5 28 0.0006 27.9 3.6 26 548-573 1-26 (85)
6 cd01179 IPT_plexin_repeat2 Sec 40.4 31 0.00067 29.2 3.1 28 548-575 1-28 (85)
7 PF14901 Jiv90: Cleavage induc 39.3 13 0.00028 33.6 0.8 18 187-204 26-43 (94)
8 cd00102 IPT Immunoglobulin-lik 39.1 37 0.0008 27.7 3.3 28 548-575 1-28 (89)
9 cd02969 PRX_like1 Peroxiredoxi 36.6 59 0.0013 30.2 4.7 48 431-478 116-169 (171)
10 cd00603 IPT_PCSR IPT domain of 35.0 42 0.00092 27.9 3.1 29 548-576 1-29 (90)
11 PRK00241 nudC NADH pyrophospha 33.1 15 0.00032 37.8 0.1 37 162-199 92-128 (256)
12 PF10083 DUF2321: Uncharacteri 24.3 28 0.00061 34.2 0.3 33 164-196 2-36 (158)
13 PF12362 DUF3646: DNA polymera 23.7 67 0.0014 29.9 2.6 28 433-460 35-62 (117)
14 PF09297 zf-NADH-PPase: NADH p 23.4 29 0.00063 24.8 0.2 30 168-198 2-31 (32)
15 COG2816 NPY1 NTP pyrophosphohy 20.2 34 0.00073 36.3 -0.0 36 162-198 104-139 (279)
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=1.6e-37 Score=262.81 Aligned_cols=78 Identities=65% Similarity=1.133 Sum_probs=63.2
Q ss_pred ceeeCCCcccccccchhhhccchhhhhcccceeeeCCchhhhhhhhhcCcccccccCccchHHHHHhhHhhhhccCCC
Q 008080 149 VCQVEDCGADLSNAKDYHRRHKVCEMHSKASRALVGNVMQRFCQQCSRFHVLQEFDEGKRSCRRRLAGHNKRRRKTNP 226 (578)
Q Consensus 149 ~CqV~GC~~dLs~~k~Y~rR~rVCe~H~kA~~v~v~G~~qRFCQQC~rFH~L~eFD~~kRSCR~rL~~hn~RRRk~~~ 226 (578)
+||||||++||+.+|.||+||||||.|+||++|+++|.++||||||+|||+|+||||+|||||++|++||+||||.++
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 699999999999999999999999999999999999999999999999999999999999999999999999999865
No 2
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=74.93 E-value=2.5 Score=41.34 Aligned_cols=31 Identities=29% Similarity=0.654 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhccCCC-------CCcccccCCceeeeh
Q 008080 451 LVLRAQILDWLSHSPS-------DMESYIRPGCVILTI 481 (578)
Q Consensus 451 ~~LR~QIl~WLs~~Pt-------dmEsYIRPGCvILTI 481 (578)
.++..+|++-|.+.=+ .--+||.|.|||||.
T Consensus 122 ~T~kn~vLnVlnn~L~d~~~~~d~~~~yikpnciv~tf 159 (168)
T PF10866_consen 122 NTFKNAVLNVLNNELSDEANEYDTSAGYIKPNCIVLTF 159 (168)
T ss_pred hHHHHHHHHHHhhhccccccccccccCccCCCeEEEee
Confidence 3688999999988666 246999999999995
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=71.65 E-value=5.3 Score=34.94 Aligned_cols=26 Identities=31% Similarity=0.497 Sum_probs=24.5
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeecc
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINL 573 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL 573 (578)
|+|+.|+|-++.+|+++++.+-|.||
T Consensus 2 p~i~aV~P~~lkaG~~t~vti~Gt~L 27 (81)
T PF09099_consen 2 PTILAVSPAGLKAGEETTVTIVGTGL 27 (81)
T ss_dssp SEEEEEESSEEETTCEEEEEEEEES-
T ss_pred CeEEEECchhccCCCeEEEEEEecCc
Confidence 79999999999999999999999999
No 4
>smart00429 IPT ig-like, plexins, transcription factors.
Probab=50.00 E-value=17 Score=30.28 Aligned_cols=28 Identities=25% Similarity=0.334 Sum_probs=24.6
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeeccCC
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINLGY 575 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL~~ 575 (578)
|+|..++|-......-+.++|+|.||..
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 7999999999887777799999999875
No 5
>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=46.50 E-value=28 Score=27.90 Aligned_cols=26 Identities=23% Similarity=0.300 Sum_probs=23.7
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeecc
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINL 573 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL 573 (578)
|.|.+|.|-.-.......+.|+|.||
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 68999999888887799999999999
No 6
>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=40.38 E-value=31 Score=29.20 Aligned_cols=28 Identities=25% Similarity=0.339 Sum_probs=25.8
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeeccCC
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINLGY 575 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL~~ 575 (578)
|.|.+|.|..-+...-+.+.++|.||..
T Consensus 1 P~I~~i~P~~Gp~~GGT~vtI~G~~~~~ 28 (85)
T cd01179 1 PSITSLSPSYGPQSGGTRLTITGKHLNA 28 (85)
T ss_pred CeeeEEcCCCCCCCCCEEEEEEEECCCC
Confidence 6899999999999999999999999964
No 7
>PF14901 Jiv90: Cleavage inducing molecular chaperone
Probab=39.29 E-value=13 Score=33.62 Aligned_cols=18 Identities=39% Similarity=0.696 Sum_probs=14.7
Q ss_pred hhhhhhhhhcCccccccc
Q 008080 187 MQRFCQQCSRFHVLQEFD 204 (578)
Q Consensus 187 ~qRFCQQC~rFH~L~eFD 204 (578)
.-||||+|..+|+..+=|
T Consensus 26 ~AR~C~~C~~~H~Ak~gD 43 (94)
T PF14901_consen 26 AARYCQDCKIRHPAKEGD 43 (94)
T ss_pred hhHhHHHhhhhcccccCC
Confidence 469999999999876544
No 8
>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=39.10 E-value=37 Score=27.70 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=25.0
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeeccCC
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINLGY 575 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL~~ 575 (578)
|+|..|+|..-...-.+.+.|+|.||..
T Consensus 1 P~I~~i~P~~g~~~GGt~itI~G~~f~~ 28 (89)
T cd00102 1 PVITSISPSSGPVSGGTEVTITGSNFGS 28 (89)
T ss_pred CEEeEEECCcCCCCCCeEEEEEEECCCC
Confidence 6899999999888788899999999864
No 9
>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=36.65 E-value=59 Score=30.21 Aligned_cols=48 Identities=19% Similarity=0.218 Sum_probs=35.2
Q ss_pred ccccceeeeEe-cCCCCC-----CccHHHHHHHHHHhccCCCCCcccccCCcee
Q 008080 431 QSRTDRIVFKL-FGKEPN-----DFPLVLRAQILDWLSHSPSDMESYIRPGCVI 478 (578)
Q Consensus 431 q~rTgRIsFKL-Fdk~P~-----dfP~~LR~QIl~WLs~~PtdmEsYIRPGCvI 478 (578)
-++.|||++.= ++-... -=...|++.|-.||+..+.+.|--+=+||.+
T Consensus 116 id~~G~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~ 169 (171)
T cd02969 116 FDPDGKLVYRGRIDDSRPGNDPPVTGRDLRAALDALLAGKPVPVPQTPSIGCSI 169 (171)
T ss_pred ECCCCeEEEeecccCCcccccccccHHHHHHHHHHHHcCCCCCccccCCCCccc
Confidence 36778998751 111111 1136699999999999999999999999975
No 10
>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=35.03 E-value=42 Score=27.95 Aligned_cols=29 Identities=31% Similarity=0.461 Sum_probs=25.8
Q ss_pred ceeEEeeeeeeeCCCceEEEEEeeccCCC
Q 008080 548 SKILSVKPIAVPASERAQFFVKGINLGYS 576 (578)
Q Consensus 548 p~i~~V~PiAv~ag~~~~f~vkG~NL~~P 576 (578)
|+|..++|.--.....+.+.++|.||..-
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 68999999999888899999999998653
No 11
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=33.12 E-value=15 Score=37.81 Aligned_cols=37 Identities=14% Similarity=0.352 Sum_probs=28.8
Q ss_pred cchhhhccchhhhhcccceeeeCCchhhhhhhhhcCcc
Q 008080 162 AKDYHRRHKVCEMHSKASRALVGNVMQRFCQQCSRFHV 199 (578)
Q Consensus 162 ~k~Y~rR~rVCe~H~kA~~v~v~G~~qRFCQQC~rFH~ 199 (578)
+-.+|++||-|..+-....+.. +...|.|..|+..|-
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 4589999999999888766554 456689999997653
No 12
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.26 E-value=28 Score=34.21 Aligned_cols=33 Identities=18% Similarity=0.423 Sum_probs=26.4
Q ss_pred hhhhccchhhh-hcccceeeeC-Cchhhhhhhhhc
Q 008080 164 DYHRRHKVCEM-HSKASRALVG-NVMQRFCQQCSR 196 (578)
Q Consensus 164 ~Y~rR~rVCe~-H~kA~~v~v~-G~~qRFCQQC~r 196 (578)
.||+-..||.- |.-...+.-+ -..+-||.|||.
T Consensus 2 g~y~~aqiC~NGH~~t~~~~~~p~~~~~fC~kCG~ 36 (158)
T PF10083_consen 2 GTYRIAQICLNGHVITDSYDKNPELREKFCSKCGA 36 (158)
T ss_pred cchhHHHHccCccccccccccCchHHHHHHHHhhH
Confidence 47788889976 8777777766 668899999995
No 13
>PF12362 DUF3646: DNA polymerase III gamma and tau subunits C terminal; InterPro: IPR022107 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00004 from PFAM. The proteins in this family are frequently annotated as the gamma and tau subunits of DNA polymerase III, however there is little accompanying literature to back this up.
Probab=23.67 E-value=67 Score=29.86 Aligned_cols=28 Identities=25% Similarity=0.530 Sum_probs=26.4
Q ss_pred ccceeeeEecCCCCCCccHHHHHHHHHH
Q 008080 433 RTDRIVFKLFGKEPNDFPLVLRAQILDW 460 (578)
Q Consensus 433 rTgRIsFKLFdk~P~dfP~~LR~QIl~W 460 (578)
.-|||.|.+=..-|.||.++|..-+.+|
T Consensus 35 ~pGrie~~~~~~ap~dl~~~L~~~L~~w 62 (117)
T PF12362_consen 35 EPGRIEFRPTPGAPKDLAQRLSRKLQEW 62 (117)
T ss_pred cCCEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 3599999999999999999999999999
No 14
>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=23.37 E-value=29 Score=24.81 Aligned_cols=30 Identities=23% Similarity=0.436 Sum_probs=15.4
Q ss_pred ccchhhhhcccceeeeCCchhhhhhhhhcCc
Q 008080 168 RHKVCEMHSKASRALVGNVMQRFCQQCSRFH 198 (578)
Q Consensus 168 R~rVCe~H~kA~~v~v~G~~qRFCQQC~rFH 198 (578)
+||-|...- ++++.+.+...|-|+.|+..|
T Consensus 2 ~~rfC~~CG-~~t~~~~~g~~r~C~~Cg~~~ 31 (32)
T PF09297_consen 2 NHRFCGRCG-APTKPAPGGWARRCPSCGHEH 31 (32)
T ss_dssp TTSB-TTT---BEEE-SSSS-EEESSSS-EE
T ss_pred CCcccCcCC-ccccCCCCcCEeECCCCcCEe
Confidence 456666543 455555566778888887643
No 15
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=20.24 E-value=34 Score=36.32 Aligned_cols=36 Identities=19% Similarity=0.409 Sum_probs=27.8
Q ss_pred cchhhhccchhhhhcccceeeeCCchhhhhhhhhcCc
Q 008080 162 AKDYHRRHKVCEMHSKASRALVGNVMQRFCQQCSRFH 198 (578)
Q Consensus 162 ~k~Y~rR~rVCe~H~kA~~v~v~G~~qRFCQQC~rFH 198 (578)
+-.+|++||.|..+- +++...+|...|-|++|+.-|
T Consensus 104 l~~w~~~~RFCg~CG-~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 104 LLEWYRSHRFCGRCG-TKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred HHHHHhhCcCCCCCC-CcCccccCceeeeCCCCCCcc
Confidence 446899999998654 566667777889999999644
Done!