Query 022876
Match_columns 290
No_of_seqs 119 out of 182
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 12:37:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022876.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/022876hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y69_J Cytochrome C oxidase po 41.5 37 0.0013 26.1 4.6 71 3-86 7-79 (80)
2 2v0c_A Aminoacyl-tRNA syntheta 30.2 9.9 0.00034 39.9 -0.3 16 203-220 495-510 (878)
3 1v54_J Cytochrome C oxidase po 22.5 1.2E+02 0.004 21.8 4.3 38 49-86 20-58 (59)
4 3v2d_5 50S ribosomal protein L 21.8 16 0.00053 26.5 -0.5 29 25-54 7-35 (60)
5 3r8s_0 50S ribosomal protein L 20.2 18 0.00062 25.8 -0.4 31 25-55 3-33 (56)
6 1nd7_A WW domain-containing pr 20.0 13 0.00045 35.1 -1.6 34 182-216 130-166 (374)
7 2zjr_Z 50S ribosomal protein L 19.0 26 0.00089 25.3 0.2 29 25-54 7-35 (60)
8 1sy9_B Cyclic-nucleotide-gated 15.4 92 0.0032 19.1 2.0 13 66-78 10-22 (26)
9 4arc_A Leucine--tRNA ligase; l 13.8 46 0.0016 35.1 0.6 12 209-221 512-523 (880)
10 1zvd_A SMAD ubiquitination reg 13.4 47 0.0016 31.4 0.5 36 181-217 130-168 (380)
No 1
>2y69_J Cytochrome C oxidase polypeptide 7A1; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=41.48 E-value=37 Score=26.05 Aligned_cols=71 Identities=20% Similarity=0.108 Sum_probs=38.0
Q ss_pred hhhhhcccccccC-CCCCCChhhhhhhcccCccchhhhhhccccccccccccccccchHHHHHHHHHHHHHHHHHHHHhh
Q 022876 3 SQLYDKTLSFRTP-FTPNQKPHKQKRKKSKSSTHRHRHRYRASMAEDLVLDTAIRDWVLIPLSVVMVLIGILRYFVSKLM 81 (290)
Q Consensus 3 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~LDp~IR~WVllPI~ivmilvGiLRhyvt~Ll 81 (290)
+|+--.|+|=-++ +-+|.-|++||-=. +.....+.|-----||+|.|++....++|+.-.-.....
T Consensus 7 ~~~~~r~~st~~~r~~~NkVpe~Qk~FQ-------------~~~g~PV~lKggrsd~~Ly~~t~~l~~~G~~~~ly~l~~ 73 (80)
T 2y69_J 7 SQALVRSFSSTARNRFENRVAEKQKLFQ-------------EDNGLPVHLKGGATDNILYRVTMTLCLGGTLYSLYCLGW 73 (80)
T ss_dssp ---------------CCCCHHHHHHHHT-------------CSSCCCGGGTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcccchhhhccccHHHHHHhc-------------CCCCceeeeecCccceeHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555554444 56777788886432 222234555555568899999999999998876666555
Q ss_pred cC-CCC
Q 022876 82 RS-SQV 86 (290)
Q Consensus 82 ~s-~kk 86 (290)
.+ |||
T Consensus 74 ~~~pkk 79 (80)
T 2y69_J 74 ASFPHK 79 (80)
T ss_dssp HTSCC-
T ss_pred HHcCCC
Confidence 55 544
No 2
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus} PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Probab=30.20 E-value=9.9 Score=39.87 Aligned_cols=16 Identities=44% Similarity=1.061 Sum_probs=12.2
Q ss_pred CCCCCccchhhhHHHHHH
Q 022876 203 LSTVDVSYVSSRSWYFLN 220 (290)
Q Consensus 203 l~dLDvswVSSlSWYFLn 220 (290)
+..|| .|++| ||||+.
T Consensus 495 tDtmD-twfdS-sw~~~~ 510 (878)
T 2v0c_A 495 TDTMD-TFFDS-SWYYLR 510 (878)
T ss_dssp CCEEC-HHHHH-TSHHHH
T ss_pred ccccc-ccccc-cchhhh
Confidence 45566 59999 899984
No 3
>1v54_J Cytochrome C oxidase polypeptide VIIA-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.4.1 PDB: 1oco_J* 1occ_J* 1ocz_J* 1ocr_J* 1v55_J* 2dyr_J* 2dys_J* 2eij_J* 2eik_J* 2eil_J* 2eim_J* 2ein_J* 2occ_J* 2ybb_U* 2zxw_J* 3abk_J* 3abl_J* 3abm_J* 3ag1_J* 3ag2_J* ...
Probab=22.51 E-value=1.2e+02 Score=21.82 Aligned_cols=38 Identities=18% Similarity=0.158 Sum_probs=26.4
Q ss_pred cccccccccchHHHHHHHHHHHHHHHHHHHHhhcC-CCC
Q 022876 49 LVLDTAIRDWVLIPLSVVMVLIGILRYFVSKLMRS-SQV 86 (290)
Q Consensus 49 L~LDp~IR~WVllPI~ivmilvGiLRhyvt~Ll~s-~kk 86 (290)
+.|-----|++|.+++....++|+...-......+ ||+
T Consensus 20 v~lKgg~sd~~Ly~~t~~l~~~g~~~~~y~l~~~~~pkk 58 (59)
T 1v54_J 20 VHLKGGATDNILYRVTMTLCLGGTLYSLYCLGWASFPHK 58 (59)
T ss_dssp TTTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCC
T ss_pred eEeecCcCceeHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 44444445778999999999999887666665555 544
No 4
>3v2d_5 50S ribosomal protein L32; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_4 2hgj_4 2hgu_4 2j03_5 2jl6_5 2jl8_5 2v47_5 2v49_5 2wdi_5 2wdj_5 2wdl_5 2wdn_5 2wh2_5 2wh4_5 2wrj_5 2wrl_5 2wro_5 2wrr_5 2x9s_5 2x9u_5 ...
Probab=21.79 E-value=16 Score=26.53 Aligned_cols=29 Identities=24% Similarity=0.230 Sum_probs=19.2
Q ss_pred hhhhcccCccchhhhhhccccccccccccc
Q 022876 25 QKRKKSKSSTHRHRHRYRASMAEDLVLDTA 54 (290)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~L~LDp~ 54 (290)
.|||.|+|.++..|--+... ...|.-||+
T Consensus 7 PKrK~Sksr~~~RRsh~kl~-~p~l~~c~~ 35 (60)
T 3v2d_5 7 PKKKTSKARRDARRSHHALT-PPTLVPCPE 35 (60)
T ss_dssp CSSCCCHHHHHHHGGGCCCC-CCCCEECTT
T ss_pred CcCcCChhhcchhhcccccc-CCceeECCC
Confidence 46778887776655446554 457887775
No 5
>3r8s_0 50S ribosomal protein L32; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_Z 1p86_Z 2awb_0 2aw4_0 2i2v_0 2j28_0 2i2t_0* 2qao_0* 2qba_0* 2qbc_0* 2qbe_0 2qbg_0 2qbi_0* 2qbk_0* 2qov_0 2qox_0 2qoz_0* 2qp1_0* 2rdo_0 2vhm_0 ...
Probab=20.16 E-value=18 Score=25.76 Aligned_cols=31 Identities=19% Similarity=0.229 Sum_probs=19.6
Q ss_pred hhhhcccCccchhhhhhcccccccccccccc
Q 022876 25 QKRKKSKSSTHRHRHRYRASMAEDLVLDTAI 55 (290)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~L~LDp~I 55 (290)
+|||.|+|.++..|--+.......|.-||+=
T Consensus 3 PKrK~Sksrr~~RRsh~kl~~~p~l~~c~~c 33 (56)
T 3r8s_0 3 QQNKPTRSKRGMRRSHDALTAVTSLSVDKTS 33 (56)
T ss_dssp CSSCCCHHHHHHHGGGCCCCCCCCEEECTTT
T ss_pred CCCcCChhhhhhhhchhhcccCCceeECCCC
Confidence 3677777777655544555553567777753
No 6
>1nd7_A WW domain-containing protein 1; HECT, ubiquitin, ligase, WWP1; 2.10A {Homo sapiens} SCOP: d.148.1.1 PDB: 3tug_A
Probab=19.95 E-value=13 Score=35.06 Aligned_cols=34 Identities=21% Similarity=0.514 Sum_probs=26.1
Q ss_pred eeeccCCChhhHHHHhhccCCCC---CCCccchhhhHH
Q 022876 182 AAKIPFPLTQRFRSMLQNGIDLS---TVDVSYVSSRSW 216 (290)
Q Consensus 182 v~KlPFPLT~rFK~MLQrGI~l~---dLDvswVSSlSW 216 (290)
+.-+|||... ||.+|..-+.+. ++|..+..|+-|
T Consensus 130 ~ld~~f~~~f-~k~llg~~~~l~Dl~~~Dp~l~~sL~~ 166 (374)
T 1nd7_A 130 FIDTGFSLPF-YKRMLSKKLTIKDLESIDTEFYNSLIW 166 (374)
T ss_dssp CCCCCCCHHH-HHHHTTCCCCHHHHHTTCHHHHHHHHH
T ss_pred eeCCcCCHHH-HHHHhCCCCCHHHHHHhhHHHHHhhhh
Confidence 4458898888 999998877644 458888888876
No 7
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...
Probab=18.99 E-value=26 Score=25.31 Aligned_cols=29 Identities=28% Similarity=0.212 Sum_probs=19.6
Q ss_pred hhhhcccCccchhhhhhccccccccccccc
Q 022876 25 QKRKKSKSSTHRHRHRYRASMAEDLVLDTA 54 (290)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~L~LDp~ 54 (290)
+|||.|+|.++..|--+.. -...|.-||+
T Consensus 7 PKrK~Sksrr~~RRsh~kl-~~p~l~~c~~ 35 (60)
T 2zjr_Z 7 PKKKTSKSKRDMRRSHHAL-TAPNLTECPQ 35 (60)
T ss_dssp CSSCCCTTHHHHHTTTCCC-CCCCCEECTT
T ss_pred CCCCCChHHhhhhcccccc-cCCCceECCC
Confidence 4788888887766555544 4567777775
No 8
>1sy9_B Cyclic-nucleotide-gated olfactory channel; helix-turn-helix, calcium-binding protein; NMR {Xenopus laevis}
Probab=15.45 E-value=92 Score=19.07 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHH
Q 022876 66 VMVLIGILRYFVS 78 (290)
Q Consensus 66 vmilvGiLRhyvt 78 (290)
|.=|||+||.++.
T Consensus 10 i~rlvgv~r~wa~ 22 (26)
T 1sy9_B 10 IARLVGVLREWAY 22 (26)
T ss_pred HHHHHHHHHHHHH
Confidence 4568999998764
No 9
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding, protein biosynthesis I aminoacyl-tRNA synthetase, ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A 4ari_A* 4as1_A*
Probab=13.80 E-value=46 Score=35.10 Aligned_cols=12 Identities=33% Similarity=1.082 Sum_probs=9.7
Q ss_pred cchhhhHHHHHHH
Q 022876 209 SYVSSRSWYFLNL 221 (290)
Q Consensus 209 swVSSlSWYFLnl 221 (290)
.|++| ||||+-+
T Consensus 512 tw~dS-swy~~r~ 523 (880)
T 4arc_A 512 TFMES-SWYYARY 523 (880)
T ss_dssp TTTGG-GTHHHHT
T ss_pred CcccC-cHHHHhh
Confidence 69998 8999753
No 10
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Probab=13.44 E-value=47 Score=31.37 Aligned_cols=36 Identities=22% Similarity=0.352 Sum_probs=29.3
Q ss_pred eeeeccCCChhhHHHHhhccCCCCCC---CccchhhhHHH
Q 022876 181 VAAKIPFPLTQRFRSMLQNGIDLSTV---DVSYVSSRSWY 217 (290)
Q Consensus 181 Vv~KlPFPLT~rFK~MLQrGI~l~dL---DvswVSSlSWY 217 (290)
++.-+|||... ||.+|..-+.+.|| |..+..|+-|-
T Consensus 130 ~~ld~~f~~~f-~k~llg~~~~l~Dl~~~Dp~l~~sL~~l 168 (380)
T 1zvd_A 130 HYIDGGFTLPF-YKQLLGKSITLDDMELVDPDLHNSLVWI 168 (380)
T ss_dssp CCCCCCCCHHH-HHHHTTCCCCSTTHHHHCHHHHHHHHHH
T ss_pred ceeCCcCCHHH-HHHHhCCCCCHHHHHHhCHHHHHHHHHH
Confidence 34568898888 99999988888887 88888888774
Done!