Query T0639 3NYM , Neisseria meningitidis MC58, 128 residues
Match_columns 128
No_of_seqs 2 out of 4
Neff 1.5
Searched_HMMs 22458
Date Thu Jul 22 14:49:21 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0639.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0639.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2i3f_A Glycolipid transfer-lik 40.9 7.1 0.00032 19.1 1.1 52 55-109 6-61 (224)
2 2kvr_A Ubiquitin carboxyl-term 22.8 16 0.00071 16.9 0.4 11 19-29 43-53 (130)
3 3idw_A Actin cytoskeleton-regu 21.2 19 0.00085 16.4 0.5 12 11-22 41-52 (72)
4 2w1o_A 60S acidic ribosomal pr 13.5 61 0.0027 13.2 1.5 20 2-21 16-35 (70)
5 3ijw_A Aminoglycoside N3-acety 13.2 63 0.0028 13.1 1.6 22 5-26 15-36 (268)
6 2k6x_A Sigma-A, RNA polymerase 11.9 69 0.0031 12.8 2.0 26 2-27 2-27 (72)
7 3kpa_A Probable ubiquitin fold 11.9 69 0.0031 12.8 2.9 37 48-85 29-66 (168)
8 2nyg_A YOKD protein; PFAM02522 11.1 74 0.0033 12.7 1.6 21 5-25 13-33 (273)
9 2po3_A 4-dehydrase; external a 10.6 74 0.0033 12.6 1.2 42 47-95 47-88 (424)
10 1vmc_A Stromal cell-derived fa 10.3 59 0.0026 13.3 0.6 12 37-48 54-65 (71)
No 1
>2i3f_A Glycolipid transfer-like protein; GLTP superfamily, GLTP-like, protein structure initiative, PSI; 1.38A {Galdieria sulphuraria} PDB: 2q52_A
Probab=40.87 E-value=7.1 Score=19.14 Aligned_cols=52 Identities=23% Similarity=0.247 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHH----HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 3689999999999999877----615412567889999999986108999999998899
Q T0639 55 NEFKEDLKNFLDYMEVCQL----ALNDKNFKIASNSLFMAMIYAGNLSLIFDSIKTDIS 109 (128)
Q Consensus 55 ~E~~ED~~~F~~~M~~~Q~----Al~~~~~K~A~~SL~~AMiY~GNl~~~F~~iKtD~~ 109 (128)
||-++||+-....++-+.. .|+-+.|--||..++.-+-..|. .|.++|.||.
T Consensus 6 ~e~~~~~~~v~~~fk~v~~~edg~I~t~~FL~a~~~i~~~fd~lG~---~F~~Vk~Dv~ 61 (224)
T 2i3f_A 6 NEEKEDFGIIVILWKQVTVKEDGKVPLEPFLTAAKEVLRVVDAFGS---GFRIVKNDIA 61 (224)
T ss_dssp -----CTTHHHHHHHTSCCCTTCCCBHHHHHHHHHHTHHHHHHHCG---GGHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCH---HHHHHHHHHH
T ss_conf 0156429999864443656899974569999999999999997260---7399999999
No 2
>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like domain, UBL, ubiquitin specific protease, HOST-virus interaction, nucleus, protease; NMR {Homo sapiens}
Probab=22.80 E-value=16 Score=16.89 Aligned_cols=11 Identities=36% Similarity=0.323 Sum_probs=8.9
Q ss_pred HHCCCCCCCHH
Q ss_conf 42264421224
Q T0639 19 LYQGFDLTDPK 29 (128)
Q Consensus 19 l~QGFDL~~~~ 29 (128)
-+|||||++..
T Consensus 43 ~~~GfDL~d~d 53 (130)
T 2kvr_A 43 GHQGNDMYDEE 53 (130)
T ss_dssp TCCCCSSCCSS
T ss_pred HCCCCCCCCCC
T ss_conf 55788898997
No 3
>3idw_A Actin cytoskeleton-regulatory complex protein SLA1; clathrin adaptor, endocytosis, SAM domain, yeast, actin- binding, cell membrane; 1.85A {Saccharomyces cerevisiae}
Probab=21.22 E-value=19 Score=16.42 Aligned_cols=12 Identities=33% Similarity=0.678 Sum_probs=7.1
Q ss_pred HHHHHHHHHHCC
Q ss_conf 999997234226
Q T0639 11 KKILINVGLYQG 22 (128)
Q Consensus 11 K~~L~~~Gl~QG 22 (128)
|.+||++||..|
T Consensus 41 ~~~Lr~LGi~eG 52 (72)
T 3idw_A 41 NSMLRTLGLREG 52 (72)
T ss_dssp HHHHHHTTCCHH
T ss_pred HHHHHHCCCCHH
T ss_conf 999998498266
No 4
>2w1o_A 60S acidic ribosomal protein P2; ribonucleoprotein, ribosome, translation, dimerization, phosphoprotein; NMR {Homo sapiens}
Probab=13.49 E-value=61 Score=13.20 Aligned_cols=20 Identities=45% Similarity=0.571 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHHHHHHHHHC
Q ss_conf 21234889999999723422
Q T0639 2 NAMETLNDIKKILINVGLYQ 21 (128)
Q Consensus 2 ~~M~~~N~iK~~L~~~Gl~Q 21 (128)
|+--+-.|||+||..+|+--
T Consensus 16 n~~Ps~~dvkkIL~svGie~ 35 (70)
T 2w1o_A 16 NSSPSAKDIKKILDSVGIEA 35 (70)
T ss_dssp CSSCCHHHHHHHHHHHTCCC
T ss_pred CCCCCHHHHHHHHHHCCCCC
T ss_conf 99999999999999848863
No 5
>3ijw_A Aminoglycoside N3-acetyltransferase; anthrax, COA, acyltransferase, structural genomics; HET: MSE ACO; 1.90A {Bacillus anthracis} PDB: 3kzl_A* 3e4f_A*
Probab=13.16 E-value=63 Score=13.07 Aligned_cols=22 Identities=27% Similarity=0.481 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 3488999999972342264421
Q T0639 5 ETLNDIKKILINVGLYQGFDLT 26 (128)
Q Consensus 5 ~~~N~iK~~L~~~Gl~QGFDL~ 26 (128)
-|..++.+.|+++||+.|=.|.
T Consensus 15 ~T~~~l~~~l~~LGI~~gd~l~ 36 (268)
T 3ijw_A 15 NTIKTITNDLRKLGLKKGMTVI 36 (268)
T ss_dssp BCHHHHHHHHHHHTCCTTCEEE
T ss_pred CCHHHHHHHHHHCCCCCCCEEE
T ss_conf 5799999999981999959999
No 6
>2k6x_A Sigma-A, RNA polymerase sigma factor RPOD; DNA-binding, transcription, transcription regulation; NMR {Thermotoga maritima}
Probab=11.94 E-value=69 Score=12.83 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=19.9
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 21234889999999723422644212
Q T0639 2 NAMETLNDIKKILINVGLYQGFDLTD 27 (128)
Q Consensus 2 ~~M~~~N~iK~~L~~~Gl~QGFDL~~ 27 (128)
+-|....-.-+-|+..|-.|||=.|+
T Consensus 2 ~~m~~~~~~ik~LI~~GK~~GylTy~ 27 (72)
T 2k6x_A 2 SHMPQIERRIKKLISLGKKKGYITYE 27 (72)
T ss_dssp CCCHHHHHHHHHHHHHHHHHSSCBHH
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf 85789999999999987626848599
No 7
>3kpa_A Probable ubiquitin fold modifier conjugating enzyme; UBL conjugation pathway, ligase, structural genomics, PSI; 2.20A {Leishmania major}
Probab=11.92 E-value=69 Score=12.83 Aligned_cols=37 Identities=30% Similarity=0.645 Sum_probs=26.3
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf 15776-213689999999999999877615412567889
Q T0639 48 TSDGN-WDNEFKEDLKNFLDYMEVCQLALNDKNFKIASN 85 (128)
Q Consensus 48 tSD~~-W~~E~~ED~~~F~~~M~~~Q~Al~~~~~K~A~~ 85 (128)
..||. |...+||.+.+..+|++.-. +-|+.=|++.||
T Consensus 29 PrD~e~W~~RLKEEy~aLI~Yv~~NK-~~DndWF~lesn 66 (168)
T 3kpa_A 29 PRDGDKWTARLKEEYASLITYVEHNK-ASDSHWFHLESN 66 (168)
T ss_dssp TTSTHHHHHHHHHHHHHHHHHHHHHH-HTTCCCEEEEEC
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCEEECCC
T ss_conf 98879999999999999999998463-146871772147
No 8
>2nyg_A YOKD protein; PFAM02522, NYSGXRC, aminoglycoside 3-N- acetyltransferase, PSI-2, structural genomics, protein structure initiative; HET: COA; 2.60A {Bacillus subtilis} SCOP: c.140.1.2
Probab=11.10 E-value=74 Score=12.66 Aligned_cols=21 Identities=29% Similarity=0.428 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCC
Q ss_conf 348899999997234226442
Q T0639 5 ETLNDIKKILINVGLYQGFDL 25 (128)
Q Consensus 5 ~~~N~iK~~L~~~Gl~QGFDL 25 (128)
.|..++.+.|+++||+.|=.+
T Consensus 13 ~Tk~~l~~~L~~LGI~kgd~v 33 (273)
T 2nyg_A 13 RTKQSITEDLKALGLKKGMTV 33 (273)
T ss_dssp BCHHHHHHHHHHHTCCTTCEE
T ss_pred CCHHHHHHHHHHCCCCCCCEE
T ss_conf 489999999998298995999
No 9
>2po3_A 4-dehydrase; external aldimine, PLP, aminotransferase, TDP-sugar; HET: T4K; 2.10A {Streptomyces venezuelae}
Probab=10.59 E-value=74 Score=12.65 Aligned_cols=42 Identities=21% Similarity=0.226 Sum_probs=27.6
Q ss_pred HCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf 0157762136899999999999998776154125678899999999861
Q T0639 47 YTSDGNWDNEFKEDLKNFLDYMEVCQLALNDKNFKIASNSLFMAMIYAG 95 (128)
Q Consensus 47 YtSD~~W~~E~~ED~~~F~~~M~~~Q~Al~~~~~K~A~~SL~~AMiY~G 95 (128)
+|..|.+-.+||+.|..|+.. .+|+- +-++.+.|..|+...|
T Consensus 47 ~s~~G~~v~~fE~~~a~~~g~----k~av~---~~SGT~AL~lal~al~ 88 (424)
T 2po3_A 47 LSNGGPLVREFEERVAGLAGV----RHAVA---TCNATAGLQLLAHAAG 88 (424)
T ss_dssp CSSSCHHHHHHHHHHHHHHTS----SEEEE---ESCHHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHHCC----CEEEE---ECCHHHHHHHHHHHCC
T ss_conf 678997899999999999784----92999---6777999999999779
No 10
>1vmc_A Stromal cell-derived factor 1; CXC-chemokine, cytokine; NMR {Homo sapiens} SCOP: d.9.1.1
Probab=10.32 E-value=59 Score=13.26 Aligned_cols=12 Identities=33% Similarity=0.924 Sum_probs=9.3
Q ss_pred CCCCHHHHHHHC
Q ss_conf 673036654201
Q T0639 37 ETANMKWIKDYT 48 (128)
Q Consensus 37 E~~~~~Wi~~Yt 48 (128)
-+|.++||..|-
T Consensus 54 i~Pk~kWiQ~YL 65 (71)
T 1vmc_A 54 IDPKLKWIQEYL 65 (71)
T ss_dssp ECTTCHHHHHHH
T ss_pred ECCHHHHHHHHH
T ss_conf 681269999999
Done!