Query T0620 INPPL1B, Homo Sapiens, 312 residues
Match_columns 312
No_of_seqs 117 out of 1623
Neff 9.6
Searched_HMMs 11830
Date Thu Jul 22 15:17:10 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0620.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0620.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03372 Exo_endo_phos: Endonu 100.0 2E-27 1.7E-31 174.0 15.0 266 7-306 1-276 (276)
2 PF00952 Bunya_nucleocap: Buny 18.4 16 0.0014 12.1 2.9 23 127-149 56-78 (228)
3 PF03514 GRAS: GRAS family tra 10.5 28 0.0023 10.8 3.0 12 267-278 360-371 (374)
4 PF00919 UPF0004: Uncharacteri 6.9 40 0.0034 9.9 3.1 43 6-51 1-43 (98)
5 PF06972 DUF1296: Protein of u 5.9 20 0.0017 11.7 -2.0 29 35-64 11-40 (60)
6 PF07853 DUF1648: Protein of u 5.8 50 0.0042 9.3 0.6 14 2-18 19-32 (51)
7 PF02076 STE3: Pheromone A rec 5.2 57 0.0048 9.0 0.6 14 257-271 47-60 (283)
8 PF10216 ChpXY: CO2 hydration 5.0 30 0.0025 10.7 -1.6 30 236-275 49-78 (353)
9 PF03808 Glyco_tran_WecB: Glyc 5.0 61 0.0052 8.8 1.2 21 34-54 91-115 (172)
10 PF01937 DUF89: Protein of unk 4.9 63 0.0053 8.8 0.3 29 164-192 279-307 (354)
No 1
>PF03372 Exo_endo_phos: Endonuclease/Exonuclease/phosphatase family Subset of Pfam family Subset of Pfam family; InterPro: IPR005135 This domain is found in a large number of proteins including magnesium dependent endonucleases and phosphatases involved in intracellular signalling . Proteins this domain is found in include: AP endonuclease proteins (4.2.99.18 from EC), DNase I proteins (3.1.21.1 from EC), Synaptojanin an inositol-1,4,5-trisphosphate phosphatase (3.1.3.56 from EC) and Sphingomyelinase (3.1.4.12 from EC).; PDB: 1si6_X 1ntf_A 2imq_X 1y21_A 1yjh_A 1i9y_A 1i9z_A 3cjc_D 2a42_B 2a40_E ....
Probab=99.95 E-value=2e-27 Score=174.03 Aligned_cols=266 Identities=25% Similarity=0.206 Sum_probs=153.4
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHCCCHHHHHHCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHC------CCCEEEE
Q ss_conf 9999861577277012345542321010013452057898899972147877789999999987531------7850899
Q T0620 7 VFIGTWNMGSVPPPKNVTSWFTSKGLGKTLDEVTVTIPHDIYVFGTQENSVGDREWLDLLRGGLKEL------TDLDYRP 80 (312)
Q Consensus 7 v~i~TwNVng~~~~~~l~~~l~~~~~~~~~~~~~~~~~~Di~vi~lQE~~~~~~~~~~~~~~~l~~~------~~~~y~~ 80 (312)
+.|+||||++......... +.+.+...+...+||| |||||+.................. ....+..
T Consensus 1 lrv~t~Nv~~~~~~~~~~~------~~~~~~~~i~~~~~Di--i~LQEv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (276)
T PF03372_consen 1 LRVMTWNVNGLSGSDDSEE------RLDELAEVIREQDPDI--ICLQEVWDSSNSNQLQNQLPSGYYYFLNECNYYPYSC 72 (276)
T ss_dssp EEEEEEEEEECHCHHHHHH------HHHHHHHHHHHHSESE--EEEEEESSHGTGHHHHHHHTCTHEECHEECEEEEEEE
T ss_pred CEEEEHHHCCCCCCCCCCH------HHHHHHHHHHHCCCCE--EEEEECCCHHCCCCHHHHCCCCCCCCCCCCCCCCCCC
T ss_conf 9999830298988732212------5799999998669988--9998255121033000000124432211212222111
Q ss_pred EECCCCCEEEEEEEECCCCCCCCCCCCCCCEEECCCCCCCCCCCEEEEEEECCEEEEEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf 83147540267888525320112445513213426875668783899999848289999710477874014678999999
Q T0620 81 IAMQSLWNIKVAVLVKPEHENRISHVSTSSVKTGIANTLGNKGAVGVSFMFNGTSFGFVNCHLTSGNEKTARRNQNYLDI 160 (312)
Q Consensus 81 ~~~~~~~~~gv~vf~r~~~~~~i~~~~~~~~~~g~~~~~~~kG~v~i~~~~~~~~i~~in~hl~a~~~~~~~R~~~~~~i 160 (312)
.........|+++++|.+............ .......+.......+..+.++|+|++++......|..++..+
T Consensus 73 ~~~~~~~~~gv~i~~r~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~v~~~H~~~~~~~~~~r~~~~~~l 145 (276)
T PF03372_consen 73 YSGSGGGDGGVAIFSRYPIFSLFSHIFPRN-------RLSSRIIVVVRIKINGRSFTVINVHLPAGGESSDQRLSQAKEL 145 (276)
T ss_dssp EETSTSSTS-EEEEESSTESEEEEECCEEE-------CESTTTTEEEEEEEETCEEEEEEEEEECC-HHHHHHHHHHHHH
T ss_pred CCCCCCCCCEEEEEEECCCCCCCCCCCCCC-------CCCCCCEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHH
T ss_conf 126788764599997327211123333323-------3555516999982488349999986375443303579999999
Q ss_pred HHHHCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 98730003444556653004644775456545467736899873024601466766567998625411433248885366
Q T0620 161 LRLLSLGDRQLNAFDISLRFTHLFWFGDLNYRLDMDIQEILNYISRKEFEPLLRVDQLNLEREKHKVFLRFSEEEISFPP 240 (312)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~v~~~GD~N~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~e~~i~F~p 240 (312)
.+.+.... ......++|++||||.+.......................+.....+..........+....+.+
T Consensus 146 ~~~~~~~~-------~~~~~~~~il~GDfN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (276)
T PF03372_consen 146 LDFLSEFI-------KNPPGDPIILAGDFNSRPDSDDYRNLSSRSDSSQDRLDWRDSLELPKEGGFDDYGRDELPIGFPP 218 (276)
T ss_dssp HHHHHHHH-------HHTTTSEEEEE---SSSHSGGHCHHHHHHHHHHHHHHHHHHHHHHHHTTCEEHHHHHHTTEESSB
T ss_pred HHHHHHCC-------CCCCCCCEEEECCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCCC
T ss_conf 76533102-------34555632587304878540011111103432124402345566651354202222220246753
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEC----CCCCCCCCCCEEEEE
Q ss_conf 247648788865343456776666777230146664175440378740002----776768985579999
Q T0620 241 TYRYERGSRDTYAWHKQKPTGVRTNVPSWCDRILWKSYPETHIICNSYGCT----DDIVTSDHSPVFGTF 306 (312)
Q Consensus 241 tyk~~~~~~~~~t~~~~~~~~~~~r~p~w~DRIly~~~~~~~~~~~~y~~~----~~~~~SDH~PV~a~f 306 (312)
||+...+. ......|+|+|||++...-............ .....|||+||.|+|
T Consensus 219 T~~~~~~~------------~~~~~~~~~lD~il~s~~~~~~~~~~~~~~~~~~~~~~~~SDH~pV~~~f 276 (276)
T PF03372_consen 219 TYKFWRNN------------SDKGGFPSRLDYILVSGSLTQRIQDVSVDSTSDKPDGFSLSDHLPVVAEF 276 (276)
T ss_dssp SBESTTCH------------CTTTTEEB--S-EEEEHHHHTTEEEEEEETTHCEETSSSSSSB-EEEEEE
T ss_pred CCCCCCCC------------CCCCCCCCCCCEEEEECHHHHHCEEEEECCCCCCCCCCCCCCCHHHEEEC
T ss_conf 22155432------------23448986305599734354203554430332235789899884309979
No 2
>PF00952 Bunya_nucleocap: Bunyavirus nucleocapsid (N) protein; InterPro: IPR001784 Orthobunyavirus are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The N protein is the major component of the nucleocapsids. This protein is thought to interact with the L protein, virus RNA and/or other N proteins .; GO: 0019013 viral nucleocapsid
Probab=18.38 E-value=16 Score=12.13 Aligned_cols=23 Identities=26% Similarity=0.494 Sum_probs=18.3
Q ss_pred EEEEECCEEEEEEEEECCCCCCC
Q ss_conf 99998482899997104778740
Q T0620 127 VSFMFNGTSFGFVNCHLTSGNEK 149 (312)
Q Consensus 127 i~~~~~~~~i~~in~hl~a~~~~ 149 (312)
+.+++.+-.+.++|.|.|.+..+
T Consensus 56 v~l~fG~~~~~vvNthfP~n~~n 78 (228)
T PF00952_consen 56 VTLKFGGWKIEVVNTHFPGNRNN 78 (228)
T ss_pred EEEEECCEEEEEEECCCCCCCCC
T ss_conf 51342667899872578553579
No 3
>PF03514 GRAS: GRAS family transcription factor; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N-terminus and a highly conserved C-terminus that contains five recognizable motifs . Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction . GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif , . Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins which suggests also some parallels in their functions.
Probab=10.48 E-value=28 Score=10.82 Aligned_cols=12 Identities=25% Similarity=0.346 Sum_probs=7.1
Q ss_pred CCCCEEEEEEEC
Q ss_conf 723014666417
Q T0620 267 PSWCDRILWKSY 278 (312)
Q Consensus 267 p~w~DRIly~~~ 278 (312)
-+|.+|.+|.++
T Consensus 360 L~Wk~~pL~~~S 371 (374)
T PF03514_consen 360 LGWKGRPLVSAS 371 (374)
T ss_pred EEECCCEEEEEE
T ss_conf 865896689993
No 4
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 This entry represents an N-terminal domain found in a family of proteins defined by sequence similarity. Most of these proteins are not yet characterised, but those that are include CDK5 regulatory subunit-associated protein 1, which specifically inhibits CDK5 activation by CDK5R1 . MiaB, a tRNA modification enzyme . It is almost always found in conjunction with a radical SAM domain (IPR006638 from INTERPRO) and a TRAM domain (IPR002792 from INTERPRO).
Probab=6.90 E-value=40 Score=9.88 Aligned_cols=43 Identities=12% Similarity=0.042 Sum_probs=21.9
Q ss_pred EEEEEEECCCCCCCCHHHHHHHHHHHCCCHHHHHHCCCCCCEEEEE
Q ss_conf 9999986157727701234554232101001345205789889997
Q T0620 6 SVFIGTWNMGSVPPPKNVTSWFTSKGLGKTLDEVTVTIPHDIYVFG 51 (312)
Q Consensus 6 ~v~i~TwNVng~~~~~~l~~~l~~~~~~~~~~~~~~~~~~Di~vi~ 51 (312)
|++|.|+-|.--..+.+ .+........+.......++|+++|-
T Consensus 1 kv~i~T~GC~~N~~dse---~~~~~L~~~G~~~v~~~e~ADviiiN 43 (98)
T PF00919_consen 1 KVYIETLGCQMNQYDSE---RMAGILKAAGYEIVDDPEEADVIIIN 43 (98)
T ss_pred CEEEEECCCCCCHHHHH---HHHHHHHHCCCCCCCCCCCCCEEEEE
T ss_conf 98999779984789999---99999975698545776779999998
No 5
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=5.88 E-value=20 Score=11.65 Aligned_cols=29 Identities=17% Similarity=0.339 Sum_probs=16.5
Q ss_pred HHHHHHCC-CCCCEEEEEEECCCCCHHHHHH
Q ss_conf 01345205-7898899972147877789999
Q T0620 35 TLDEVTVT-IPHDIYVFGTQENSVGDREWLD 64 (312)
Q Consensus 35 ~~~~~~~~-~~~Di~vi~lQE~~~~~~~~~~ 64 (312)
.+.++... .++|||+. |+|+.|...+..+
T Consensus 11 ~iKEiv~~hSd~eIya~-L~ec~MDPnEtvq 40 (60)
T PF06972_consen 11 SIKEIVGKHSDEEIYAM-LKECNMDPNETVQ 40 (60)
T ss_pred HHHHHHCCCCHHHHHHH-HHHHCCCHHHHHH
T ss_conf 99999848977999999-9996798789999
No 6
>PF07853 DUF1648: Protein of unknown function (DUF1648); InterPro: IPR012867 This entry contains hypothetical proteins expressed by either bacterial or archaeal species. Some of these are annotated as being transmembrane proteins, and many contain a high proportion of hydrophobic residues.
Probab=5.84 E-value=50 Score=9.34 Aligned_cols=14 Identities=43% Similarity=0.914 Sum_probs=6.7
Q ss_pred CCEEEEEEEEECCCCCC
Q ss_conf 97379999986157727
Q T0620 2 PDMISVFIGTWNMGSVP 18 (312)
Q Consensus 2 p~~l~v~i~TwNVng~~ 18 (312)
|+++.++ ||.+|..
T Consensus 19 P~~ip~H---~~~~G~~ 32 (51)
T PF07853_consen 19 PDEIPTH---WNANGEP 32 (51)
T ss_pred CHHHCEE---ECCCCCC
T ss_conf 5644321---5889987
No 7
>PF02076 STE3: Pheromone A receptor; InterPro: IPR001499 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence . The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs: http://www.gpcr.org/7tm/. Little is known about the structure and function of the mating factor receptors, STE2 and STE3. It is believed, however, that they are integral membrane proteins that may be involved in the response to mating factors on the cell membrane , , . The amino acid sequences of both receptors contain high proportions of hydrophobic residues grouped into 7 domains, in a manner reminiscent of the rhodopsins and other receptors believed to interact with G-proteins. However, while a similar 3D framework has been proposed to account for this, there is no significant sequence similarity either between STE2 and STE3, or between these and the rhodopsin-type family: the receptors thus bear their own unique '7TM' signatures. The STE3 gene of Saccharomyces cerevisiae is the cell-surface receptor that binds the 13-residue lipopeptide a-factor. Several related fungal pheromone receptor sequences are known: these include pheromone B alpha 1 and B alpha 3, and pheromone B beta 1 receptors from Schizophyllum commune; pheromone receptor 1 from Ustilago hordei; and pheromone receptors 1 and 2 from Ustilago maydis. Members of the family share about 20% sequence identity.; GO: 0004932 mating-type factor pheromone receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane
Probab=5.24 E-value=57 Score=9.00 Aligned_cols=14 Identities=29% Similarity=0.636 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCE
Q ss_conf 567766667772301
Q T0620 257 QKPTGVRTNVPSWCD 271 (312)
Q Consensus 257 ~~~~~~~~r~p~w~D 271 (312)
..++. ..+.|+|||
T Consensus 47 W~~~~-~~~~~~wCD 60 (283)
T PF02076_consen 47 WSGND-INWWPGWCD 60 (283)
T ss_pred CCCCC-CCCCEEEEH
T ss_conf 38997-311601310
No 8
>PF10216 ChpXY: CO2 hydration protein (ChpXY)
Probab=4.99 E-value=30 Score=10.66 Aligned_cols=30 Identities=23% Similarity=0.419 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 8536624764878886534345677666677723014666
Q T0620 236 ISFPPTYRYERGSRDTYAWHKQKPTGVRTNVPSWCDRILW 275 (312)
Q Consensus 236 i~F~ptyk~~~~~~~~~t~~~~~~~~~~~r~p~w~DRIly 275 (312)
+.+-|-|||.+|....--.|.++ |-|||-|
T Consensus 49 L~~fP~FKyF~Ge~~~~kLl~Hl----------~hDRIN~ 78 (353)
T PF10216_consen 49 LNPFPFFKYFNGEISLPKLLHHL----------WHDRINF 78 (353)
T ss_pred CCCCHHHHHHCCCCCHHHHHHHH----------HHCHHHH
T ss_conf 03225877717887889999997----------3111015
No 9
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=4.97 E-value=61 Score=8.82 Aligned_cols=21 Identities=29% Similarity=0.275 Sum_probs=0.0
Q ss_pred CHHHHHHCCCCCCEEEEEE----EC
Q ss_conf 0013452057898899972----14
Q T0620 34 KTLDEVTVTIPHDIYVFGT----QE 54 (312)
Q Consensus 34 ~~~~~~~~~~~~Di~vi~l----QE 54 (312)
..+.+.+....|||+++|| ||
T Consensus 91 ~~i~~~I~~s~pdiv~vglG~PkQE 115 (172)
T PF03808_consen 91 EAIIEAINASGPDIVFVGLGSPKQE 115 (172)
T ss_pred HHHHHHHHHCCCCEEEEECCCCHHH
T ss_conf 9999999972969999988998789
No 10
>PF01937 DUF89: Protein of unknown function DUF89; InterPro: IPR002791 This entry contains uncharacterised proteins. Those with structural information consist of two domains: an all-alpha domain with a 3-helical bundle immunoglobulin-like fold, and an alpha-beta domain in 3 layers, alpha/beta/alpha. ; PDB: 2ffj_A 1xfi_A 2q40_A 2g8l_B.
Probab=4.86 E-value=63 Score=8.76 Aligned_cols=29 Identities=24% Similarity=0.329 Sum_probs=0.0
Q ss_pred HCCCHHHHHHHHHHHCCCCEEEECCCCCC
Q ss_conf 30003444556653004644775456545
Q T0620 164 LSLGDRQLNAFDISLRFTHLFWFGDLNYR 192 (312)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~v~~~GD~N~~ 192 (312)
..+........+.....+-||.=||.|||
T Consensus 279 ~~~~~~~~~l~~~l~~adLVI~KG~~Nyr 307 (354)
T PF01937_consen 279 TDLWRMSPELYEALKEADLVIFKGDLNYR 307 (354)
T ss_dssp --TTCS-HHHHHHHHH-SEEEE---HHHH
T ss_pred CCHHHHCHHHHHHHCCCCEEEEECCHHHH
T ss_conf 79888599999997109989995747887
Done!