Query T0614 Sin1, Homo Sapiens, 135 residues
Match_columns 135
No_of_seqs 67 out of 69
Neff 4.4
Searched_HMMs 11830
Date Mon Jul 5 09:00:52 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0614.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0614.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05422 SIN1: Stress-activate 100.0 6E-36 5E-40 236.3 8.9 95 1-102 428-523 (523)
2 PF08416 PTB: Phosphotyrosine- 29.0 15 0.0013 15.2 7.6 80 19-108 39-125 (131)
3 PF12060 DUF3541: Domain of un 20.0 22 0.0019 14.1 3.1 50 85-134 136-200 (227)
4 PF05456 eIF_4EBP: Eukaryotic 16.6 19 0.0016 14.6 1.0 21 97-117 45-65 (116)
5 PF07159 DUF1394: Protein of u 14.9 30 0.0025 13.4 2.8 21 89-109 6-28 (303)
6 PF05261 Tra_M: TraM protein; 14.7 18 0.0015 14.7 0.5 17 96-112 8-24 (127)
7 PF04914 DltD_C: DltD C-termin 14.6 24 0.002 13.9 1.1 35 77-111 53-88 (130)
8 PF08878 DUF1837: Domain of un 12.6 28 0.0024 13.5 1.0 39 13-54 75-116 (236)
9 PF09330 Lact-deh-memb: D-lact 11.1 29 0.0024 13.5 0.7 31 86-116 219-250 (291)
10 PF10496 Syntaxin-18_N: SNARE- 10.3 41 0.0035 12.5 2.8 28 94-122 41-68 (86)
No 1
>PF05422 SIN1: Stress-activated map kinase interacting protein 1 (SIN1); InterPro: IPR008828 This family consists of several stress-activated map kinase interacting protein 1 (MAPKAP1 OR SIN1) sequences. The Schizosaccharomyces pombe Sty1/Spc1 mitogen-activated protein (MAP) kinase is a member of the eukaryotic stress-activated MAP kinase (SAPK) family. Sin1 interacts with Sty1/Spc1. Cells lacking Sin1 display many, but not all, of the phenotypes of cells lacking the Sty1/Spc1 MAP kinase including sterility, multiple stress sensitivity and a cell-cycle delay. Sin1 is phosphorylated after stress but this is not Sty1/Spc1-dependent .
Probab=100.00 E-value=6e-36 Score=236.27 Aligned_cols=95 Identities=28% Similarity=0.481 Sum_probs=86.7
Q ss_pred CCCCCEEEEEEEECCCCCCEEEEEEECCCEEEEECCCCCCCCCEEECCCCCEEECCCCEEEEEEECCCCCCCCEEEEEEE
Q ss_conf 98860478999723656412268875373899735878755531321677013232310344431235888517999985
Q T0614 1 GSHHYKSFKVSMIHRLRFTTDVQLGISGDKVEIDPVTNQKASTKFWIKQKPISIDSDLLCACDLAEEKSPSHAIFKLTYL 80 (135)
Q Consensus 1 ~s~~Yk~y~V~r~~k~~~k~Er~L~IDGdyI~I~P~~~~k~~~~f~~~~Kt~S~~i~~Vv~ckiv~r~~~~~~~Fkiv~~ 80 (135)
++++||+|+|||+|+|+|++||+||||||||||||.+++ +||.++||+|+||++||+||+++++ |..|||+|.
T Consensus 428 ~a~~yr~y~V~rkq~m~f~~er~L~idgdyi~I~p~~~~----~~~~~~Kt~s~~~~~V~~ck~s~r~---p~~fki~v~ 500 (523)
T PF05422_consen 428 EAGAYRKYTVWRKQPMSFKHERQLAIDGDYIHIMPSESK----KFWEQGKTTSIHISSVVGCKVSRRH---PANFKIVVK 500 (523)
T ss_pred CCCCCEEEEEEEECCCCCCCCEEEEECCCEEEECCCCCC----CCCCCCCCEEEEHHHEEEEEEECCC---CCEEEEEEE
T ss_conf 354312799999605776531699852756997678876----6545789557730261544672106---742899997
Q ss_pred CCCCCEEEEEECCH-HHHHHHHH
Q ss_conf 18860588751787-89999999
Q T0614 81 SNHDYKHLYFESDA-ATVNEIVL 102 (135)
Q Consensus 81 ~~~~~KrYDFEA~~-~~A~EIV~ 102 (135)
++++.|||||||.+ .+|+|||.
T Consensus 501 ~~~~~kry~fea~sa~~~~~iv~ 523 (523)
T PF05422_consen 501 RNSESKRYDFEATSAPEAAEIVS 523 (523)
T ss_pred CCCCCCCCEEECCCCHHHHHHCC
T ss_conf 48877654014157045323029
No 2
>PF08416 PTB: Phosphotyrosine-binding domain; InterPro: IPR013625 The phosphotyrosine-binding domain (PTB, also phosphotyrosine-interaction or PI domain) of tensin tends to be found at the C terminus of a protein. Tensin is a multi-domain protein that binds to actin filaments and functions as a focal-adhesion molecule (focal adhesions are regions of plasma membrane through which cells attach to the extracellular matrix). Human tensin has actin-binding sites, an SH2 (IPR000980 from INTERPRO) domain and a region similar to the tumour suppressor PTEN . The PTB domain interacts with the cytoplasmic tails of beta integrin by binding to an NPXY motif . ; PDB: 2gjy_A 1wvh_A 2cy4_A 2cy5_A 2dkq_A.
Probab=29.02 E-value=15 Score=15.16 Aligned_cols=80 Identities=16% Similarity=0.280 Sum_probs=54.6
Q ss_pred CEEEEEEECCCEEEEECCCCCCCCCEEECCCCCEEECCCCEEEEEEECCCCCCCCEEEEEEECCC---CCEEEEEEC---
Q ss_conf 12268875373899735878755531321677013232310344431235888517999985188---605887517---
Q T0614 19 TTDVQLGISGDKVEIDPVTNQKASTKFWIKQKPISIDSDLLCACDLAEEKSPSHAIFKLTYLSNH---DYKHLYFES--- 92 (135)
Q Consensus 19 k~Er~L~IDGdyI~I~P~~~~k~~~~f~~~~Kt~S~~i~~Vv~ckiv~r~~~~~~~Fkiv~~~~~---~~KrYDFEA--- 92 (135)
.++.+|-++...|.+.-.+++. |+ -+++++.|.+|..+.....=++.|.+|+.... +.= +-|-.
T Consensus 39 ~q~v~lkV~~~gItL~D~~~k~----~~-----e~yp~~~I~~~~~~~~~~~~~~il~fV~r~~~~~~~~~-HlFqc~ev 108 (131)
T PF08416_consen 39 PQEVHLKVSDQGITLTDNERKE----FF-----EHYPLNSITHCGADPNDRRYNSILAFVARKPGSSKDNV-HLFQCDEV 108 (131)
T ss_dssp -EEEEEEE-SSEEEEEESSTSS----CC-----EEEECCCEEEEECETT--EES-EEEEEEE-TT-TT-EE-EEEE--E-
T ss_pred CEEEEEEEECCCEEEEECCCCE----EE-----EECCCCCEEECCCCCCCCCCCCEEEEEECCCCCCCCCE-EEEECCCC
T ss_conf 4799999968948999778740----34-----44583030002525898871318999983799999867-89852877
Q ss_pred CH-HHHHHHHHHHHHHH
Q ss_conf 87-89999999988887
Q T0614 93 DA-ATVNEIVLKVNYIL 108 (135)
Q Consensus 93 ~~-~~A~EIV~kIn~IL 108 (135)
++ ..|+.|++=++-++
T Consensus 109 ~a~~~~~~i~~~~~~~~ 125 (131)
T PF08416_consen 109 DAEQPASDIVNFVSKVM 125 (131)
T ss_dssp -TCSHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHHHH
T ss_conf 87788999999998752
No 3
>PF12060 DUF3541: Domain of unknown function (DUF3541)
Probab=20.04 E-value=22 Score=14.11 Aligned_cols=50 Identities=18% Similarity=0.304 Sum_probs=38.5
Q ss_pred CEEEEEEC---CHH----HHHHHHHHHHHHHHHCCCHHHHHHHH--------HHHHHHHHHHCCC
Q ss_conf 05887517---878----99999999888876115524688898--------8888767642379
Q T0614 85 YKHLYFES---DAA----TVNEIVLKVNYILESRASTARADYFA--------QKQRKLNRRTSGN 134 (135)
Q Consensus 85 ~KrYDFEA---~~~----~A~EIV~kIn~ILe~R~s~~r~e~~~--------~r~rk~~~~~~~~ 134 (135)
.|+|||+. |++ =|+++.+-.=|+-++--.++-.+|.. .++.|++++-=||
T Consensus 136 lrr~Df~~~~Td~~MI~aWAAQLaN~VYW~kQlG~~D~v~~f~~AF~~tYPD~~D~kLsk~Qy~N 200 (227)
T PF12060_consen 136 LRRYDFKKYLTDKAMIKAWAAQLANQVYWLKQLGEQDVVNDFKQAFRKTYPDNKDKKLSKQQYRN 200 (227)
T ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCC
T ss_conf 99805301269999999999999999999999471157999999999858984044532998512
No 4
>PF05456 eIF_4EBP: Eukaryotic translation initiation factor 4E binding protein (EIF4EBP); InterPro: IPR008606 This family consists of several eukaryotic translation initiation factor 4E binding proteins (EIF4EBP1, -2 and -3). Translation initiation in eukaryotes is mediated by the cap structure (m7GpppN, where N is any nucleotide) present at the 5' end of all cellular mRNAs, except organellar. The cap is recognised by eukaryotic initiation factor 4F (eIF4F), which consists of three polypeptides, including eIF4E, the cap-binding protein subunit. The interaction of the cap with eIF4E facilitates the binding of the ribosome to the mRNA. eIF4E activity is regulated in part by translational repressors, 4E-BP1, 4E-BP2 and 4E-BP3 which bind to it and prevent its assembly into eIF4F .; GO: 0008190 eukaryotic initiation factor 4E binding, 0045947 negative regulation of translational initiation; PDB: 2v8w_F 2v8x_F 2jgc_B 2jgb_B 1wkw_B 2v8y_B.
Probab=16.59 E-value=19 Score=14.55 Aligned_cols=21 Identities=19% Similarity=0.338 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHCCCHHHH
Q ss_conf 999999988887611552468
Q T0614 97 VNEIVLKVNYILESRASTARA 117 (135)
Q Consensus 97 A~EIV~kIn~ILe~R~s~~r~ 117 (135)
-.-|+..=+++|++|.|++-+
T Consensus 45 GTRIIYdR~FLl~~RnSPlar 65 (116)
T PF05456_consen 45 GTRIIYDRKFLLNCRNSPLAR 65 (116)
T ss_dssp -------HHHHHHTCG-----
T ss_pred CCEEEEEHHHHHHHCCCCCCC
T ss_conf 747887679998740797545
No 5
>PF07159 DUF1394: Protein of unknown function (DUF1394); InterPro: IPR009828 This family consists of several hypothetical eukaryotic proteins of around 320 residues in length. The function of this family is unknown.
Probab=14.93 E-value=30 Score=13.37 Aligned_cols=21 Identities=33% Similarity=0.444 Sum_probs=9.1
Q ss_pred EEE-CCH-HHHHHHHHHHHHHHH
Q ss_conf 751-787-899999999888876
Q T0614 89 YFE-SDA-ATVNEIVLKVNYILE 109 (135)
Q Consensus 89 DFE-A~~-~~A~EIV~kIn~ILe 109 (135)
||| |.| .+-.||.+.+|-+|+
T Consensus 6 DfenA~Pt~~E~ev~~~vn~vL~ 28 (303)
T PF07159_consen 6 DFENAQPTEEEREVYEQVNEVLE 28 (303)
T ss_pred ECCCCCCCHHHHHHHHHHHHHHH
T ss_conf 46679999899999999999999
No 6
>PF05261 Tra_M: TraM protein; InterPro: IPR007925 The TraM protein is an essential part of the DNA transfer machinery of the conjugative resistance plasmid R1 (IncFII). On the basis of mutational analyses, it was shown that the essential transfer protein TraM has at least two functions. First, a functional TraM protein was found to be required for normal levels of transfer gene expression. Second, experimental evidence was obtained that TraM stimulates efficient site-specific single-stranded DNA cleavage at the oriT, in vivo. Furthermore, a specific interaction of the cytoplasmic TraM protein with the membrane protein TraD was demonstrated, suggesting that the TraM protein creates a physical link between the relaxosomal nucleoprotein complex and the membrane-bound DNA transfer apparatus .; GO: 0003677 DNA binding, 0000746 conjugation; PDB: 3d8a_B 2g9e_A 2g7o_A 1dp3_A.
Probab=14.68 E-value=18 Score=14.68 Aligned_cols=17 Identities=35% Similarity=0.497 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHCC
Q ss_conf 99999999888876115
Q T0614 96 TVNEIVLKVNYILESRA 112 (135)
Q Consensus 96 ~A~EIV~kIn~ILe~R~ 112 (135)
+-.+++.+||.|.|-|.
T Consensus 8 vsn~v~e~I~~iveeRr 24 (127)
T PF05261_consen 8 VSNQVYEKINAIVEERR 24 (127)
T ss_dssp ---THHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 51468999999999999
No 7
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation . These sequences contain the C-terminal region of DltD.; PDB: 3bma_C.
Probab=14.61 E-value=24 Score=13.93 Aligned_cols=35 Identities=17% Similarity=0.216 Sum_probs=29.8
Q ss_pred EEEECCCCCEEEEEEC-CHHHHHHHHHHHHHHHHHC
Q ss_conf 9985188605887517-8789999999988887611
Q T0614 77 LTYLSNHDYKHLYFES-DAATVNEIVLKVNYILESR 111 (135)
Q Consensus 77 iv~~~~~~~KrYDFEA-~~~~A~EIV~kIn~ILe~R 111 (135)
|++..+...|-||+.. +...-++.+.||+..|+..
T Consensus 53 lfIi~PvNgkWydytG~~~~~r~~~y~kI~~~~~~~ 88 (130)
T PF04914_consen 53 LFIIPPVNGKWYDYTGLSKEMRQQYYKKIKYQLKSQ 88 (130)
T ss_dssp EEEE----HHHHHH--B-HHHHHHHHHHHHHHHHT-
T ss_pred EEEECCCCCHHHHHHCCCHHHHHHHHHHHHHHHHHC
T ss_conf 798557871588880889999999999999999987
No 8
>PF08878 DUF1837: Domain of unknown function (DUF1837); InterPro: IPR014976 This group of proteins are functionally uncharacterised.
Probab=12.63 E-value=28 Score=13.53 Aligned_cols=39 Identities=15% Similarity=0.133 Sum_probs=22.9
Q ss_pred ECCCCCCEE---EEEEECCCEEEEECCCCCCCCCEEECCCCCEEE
Q ss_conf 236564122---688753738997358787555313216770132
Q T0614 13 IHRLRFTTD---VQLGISGDKVEIDPVTNQKASTKFWIKQKPISI 54 (135)
Q Consensus 13 ~~k~~~k~E---r~L~IDGdyI~I~P~~~~k~~~~f~~~~Kt~S~ 54 (135)
.-+|.+|+. -+-|.|| |||.+-.++. ...+|..+|.-+-
T Consensus 75 ~~K~~lKt~~~~~~~G~D~--VHi~~~~~~~-~~L~lGESKly~d 116 (236)
T PF08878_consen 75 LSKMYLKTSSNMHVHGFDG--VHIVVDNDNG-LQLWLGESKLYKD 116 (236)
T ss_pred EEEEEEECCCCCCCCCCCE--EEEEECCCCC-CEEEEEEEEECCC
T ss_conf 4789872488872026762--7997428988-6899986100036
No 9
>PF09330 Lact-deh-memb: D-lactate dehydrogenase, membrane binding; InterPro: IPR015409 Members of this entry are predominantly found in prokaryotic D-lactate dehydrogenase, forming the cap-membrane-binding domain, which consists of a large seven-stranded antiparallel beta-sheet flanked on both sides by alpha-helices. They allow for membrane association . ; GO: 0008720 D-lactate dehydrogenase activity, 0009055 electron carrier activity, 0050660 FAD binding, 0055085 transmembrane transport, 0000300 peripheral to membrane of membrane fraction; PDB: 1f0x_B.
Probab=11.07 E-value=29 Score=13.46 Aligned_cols=31 Identities=10% Similarity=0.133 Sum_probs=17.7
Q ss_pred EEEEEECC-HHHHHHHHHHHHHHHHHCCCHHH
Q ss_conf 58875178-78999999998888761155246
Q T0614 86 KHLYFESD-AATVNEIVLKVNYILESRASTAR 116 (135)
Q Consensus 86 KrYDFEA~-~~~A~EIV~kIn~ILe~R~s~~r 116 (135)
=|-|+-.. ..-|.++-.++-.+|+-|-.-+-
T Consensus 219 fHQDYi~KkGvD~~~lk~~ml~lLd~RgA~YP 250 (291)
T PF09330_consen 219 FHQDYIVKKGVDAKALKHEMLALLDARGAEYP 250 (291)
T ss_dssp EEEEEEEE----HHHHHHHHHHHHHH---BSS
T ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf 14766640587889999999999987078788
No 10
>PF10496 Syntaxin-18_N: SNARE-complex protein Syntaxin-18 N-terminus
Probab=10.28 E-value=41 Score=12.49 Aligned_cols=28 Identities=14% Similarity=0.186 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 78999999998888761155246888988
Q T0614 94 AATVNEIVLKVNYILESRASTARADYFAQ 122 (135)
Q Consensus 94 ~~~A~EIV~kIn~ILe~R~s~~r~e~~~~ 122 (135)
.++|-+|..-|..++. -...+|..||+-
T Consensus 41 ~KeA~~i~~~I~~L~~-fL~~iR~~Yls~ 68 (86)
T PF10496_consen 41 LKEAYRINSHITSLLT-FLKSIRKAYLSI 68 (86)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHC
T ss_conf 9999999999999999-999982999705
Done!