Query psy13908
Match_columns 149
No_of_seqs 171 out of 1071
Neff 5.3
Searched_HMMs 29240
Date Fri Aug 16 23:33:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13908.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/13908hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_J 40S ribosomal protein S 100.0 2.5E-47 8.6E-52 305.6 9.5 134 14-148 12-147 (197)
2 3j20_D 30S ribosomal protein S 100.0 2.3E-45 7.9E-50 290.8 10.1 132 14-148 11-143 (180)
3 3iz6_C 40S ribosomal protein S 100.0 3.7E-47 1.3E-51 304.3 -6.2 147 1-148 1-149 (195)
4 2xzm_D Ribosomal protein S4 co 100.0 9.5E-44 3.2E-48 281.6 10.2 134 14-148 12-147 (181)
5 2cqj_A BRMS2, U3 small nucleol 99.7 7.5E-18 2.6E-22 114.7 1.9 46 102-147 2-47 (71)
6 3bbn_D Ribosomal protein S4; s 99.5 7.9E-14 2.7E-18 111.7 7.3 46 103-148 84-129 (201)
7 1c05_A Ribosomal protein S4 de 99.3 8.2E-13 2.8E-17 101.8 2.4 83 24-147 8-90 (159)
8 3r8n_D 30S ribosomal protein S 99.1 3.8E-11 1.3E-15 96.4 2.0 47 101-147 88-134 (205)
9 2vqe_D 30S ribosomal protein S 99.0 1.7E-10 5.7E-15 92.5 4.7 45 103-147 94-138 (209)
10 1p9k_A ORF, hypothetical prote 98.1 2.4E-07 8.2E-12 62.8 -1.7 40 108-147 21-60 (79)
11 3kbg_A 30S ribosomal protein S 97.9 3.5E-06 1.2E-10 68.0 2.5 33 116-148 17-49 (213)
12 3j20_E 30S ribosomal protein S 97.9 4E-06 1.4E-10 68.8 2.9 33 116-148 52-84 (243)
13 2k6p_A Uncharacterized protein 97.5 1.6E-05 5.4E-10 54.8 -0.1 39 108-147 1-39 (92)
14 1dm9_A Hypothetical 15.5 KD pr 97.4 6E-05 2.1E-09 56.0 2.7 40 107-147 8-47 (133)
15 2jan_A Tyrosyl-tRNA synthetase 95.6 0.0055 1.9E-07 53.6 2.7 39 109-147 357-395 (432)
16 1v9f_A Ribosomal large subunit 95.6 0.0021 7.1E-08 53.4 0.0 41 107-147 16-56 (325)
17 1h3f_A Tyrosyl-tRNA synthetase 95.6 0.0056 1.9E-07 53.4 2.7 39 109-147 370-408 (432)
18 1jil_A Tyrrs, tyrosyl-tRNA syn 95.3 0.0029 9.9E-08 55.0 0.0 39 109-147 354-392 (420)
19 2ts1_A Tyrosyl-tRNA synthetase 94.8 0.0049 1.7E-07 53.6 0.0 39 109-147 353-391 (419)
20 2ktl_A Tyrosyl-tRNA synthetase 94.5 0.0082 2.8E-07 46.5 0.7 36 109-144 51-86 (164)
21 3u5c_E RP5, S7, YS6, 40S ribos 94.3 0.023 7.8E-07 47.0 2.9 33 116-148 51-83 (261)
22 3iz6_D 40S ribosomal protein S 93.7 0.024 8.3E-07 46.9 1.9 47 93-148 37-83 (265)
23 2xzm_W 40S ribosomal protein S 93.2 0.058 2E-06 44.5 3.3 33 116-148 51-85 (260)
24 3c6c_A 3-keto-5-aminohexanoate 31.4 67 0.0023 26.7 5.0 60 79-139 196-268 (316)
25 2e6x_A TT1592, hypothetical pr 30.0 31 0.0011 22.8 2.2 27 111-137 24-64 (69)
No 1
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D*
Probab=100.00 E-value=2.5e-47 Score=305.61 Aligned_cols=134 Identities=23% Similarity=0.317 Sum_probs=129.2
Q ss_pred ccCCCCcccccccHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHhcccCC-c
Q psy13908 14 KKVDFISWEADNNLHEVKIMRRFGIQ-KRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRT-K 91 (149)
Q Consensus 14 kkv~f~~w~~~~~~~E~~l~~~YgLk-krE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~kL~~~Gll~~-~ 91 (149)
-.+|.+||+++++.+|+++|++|||+ |||.|+ |+++|++||++|+.|++||++||||++++.+||+|||+||||++ +
T Consensus 12 ~~tP~~p~~~~r~~~E~~l~~~YgL~nKrE~wr-~~~~l~~iR~~Ar~Ll~l~~~dp~r~~~~~~LL~kL~~~Gil~~~~ 90 (197)
T 3u5c_J 12 YSTPKRPYESSRLDAELKLAGEFGLKNKKEIYR-ISFQLSKIRRAARDLLTRDEKDPKRLFEGNALIRRLVRVGVLSEDK 90 (197)
T ss_dssp CCCCSSSCCHHHHHHHHHHHHHHTCSCHHHHHH-HHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTSSCGGG
T ss_pred cCCCCCchhHHhhHHHHHHHHHhCCCCHHHHHH-HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHHcCCCCCcc
Confidence 36999999999999999999999999 888899 78888899999999999999999999999999999999999975 7
Q ss_pred ccccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 92 WDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 92 ~~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
.+|++|+++|+++|||+|||++||++|||+|+.+|+|||.||||+|||++|++|||-
T Consensus 91 ~~L~~v~~l~~~~~le~RLD~~L~r~G~a~Sr~~ArqLI~~GhV~VNG~~V~~Ps~~ 147 (197)
T 3u5c_J 91 KKLDYVLALKVEDFLERRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIPSFM 147 (197)
T ss_dssp CSSHHHHHCCHHHHHTTSHHHHHHHSSTTSSHHHHHHHHHTSCCBSSSCBCCCTTCC
T ss_pred cChhhhhcccHHHHHHHHHHHHHHHccccCCHHHHHHHHHcCCEEECCEEeCCCccc
Confidence 899999999999999999999999999999999999999999999999999999984
No 2
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=2.3e-45 Score=290.78 Aligned_cols=132 Identities=18% Similarity=0.279 Sum_probs=126.4
Q ss_pred ccCCCCcccccccHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHhcccCCcc
Q psy13908 14 KKVDFISWEADNNLHEVKIMRRFGIQ-KRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKW 92 (149)
Q Consensus 14 kkv~f~~w~~~~~~~E~~l~~~YgLk-krE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~kL~~~Gll~~~~ 92 (149)
..+|++||+++++.+|.+++++|||+ ++|.|+ |+++|++||++|+.|++++++| +..++++||+|||+||||++++
T Consensus 11 ~~~p~~pw~~~r~~~E~kl~~~YgL~nk~e~wk-~~~~l~~~r~~Ar~L~~l~~~d--~~~~~~~LL~kL~~~Gll~~~~ 87 (180)
T 3j20_D 11 YETPPHPWIKERLDRERVLMDKYELKNKKELWK-HETQLKNFRRRARRLLAARGKQ--AEIEREQLLARLKRLGLLPEDA 87 (180)
T ss_dssp CCCCSSSSCHHHHHHHHHHHHHHTCSCTHHHHH-HHHHHHHHHHHHHHHHHSCTTS--CTHHHHHHHHHHHHHTSSSSCC
T ss_pred CCCCCCchhhhhhHHHHHHHHHhCCCcHHHHHH-HHHHHHHHHHHHHHHhcCCchh--HHHHHHHHHHHHHHcCCCCCCC
Confidence 36899999999999999999999999 666666 9999999999999999999999 6779999999999999999999
Q ss_pred cccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 93 DLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 93 ~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
+||+|++|++++|||+|||++|++.|||+|+.+|+++|.||||+|||++|++|||-
T Consensus 88 ~L~~vl~l~~~~~le~RLD~~L~~~G~a~SR~~Ar~LI~~G~V~VNg~~V~~Ps~~ 143 (180)
T 3j20_D 88 VLDDVLSLTIEDILERRLQTIVYKKGLARTMRQARQLIVHGHIEVNGQIIRSPSYL 143 (180)
T ss_dssp CSHHHHTCCHHHHHHTSHHHHHHHHTSSSSHHHHHHHHHHTCCEESSSBCCCSSCC
T ss_pred CHHHHhccchHhhhhhhhhheeecCcccCcHHHHHHHHHcCCeEECCEEeCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999984
No 3
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=100.00 E-value=3.7e-47 Score=304.25 Aligned_cols=147 Identities=24% Similarity=0.338 Sum_probs=136.5
Q ss_pred CcccchhhhhhhcccCCCCcccccccHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q psy13908 1 MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQ-KRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLL 79 (149)
Q Consensus 1 m~r~lk~he~kLlkkv~f~~w~~~~~~~E~~l~~~YgLk-krE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL 79 (149)
|.|...-+=++-|-++|.+||+++++++|+++|++|||+ |||.|+ |+++|++||++|+.|++++++||+|.+++++||
T Consensus 1 ~~~~~~~~~k~~~~~~P~~p~~~~r~~~E~~l~~~YgL~nKrE~wr-~~~~l~~iR~~Ar~L~~l~e~d~~r~~~~~~lL 79 (195)
T 3iz6_C 1 MPRAPRTYSKTYSTKKPRRPYEKERLDAELKLVGEYGLRCKRELWR-VQYALSRIRNNARHLLTLDEKNPRRIFEGEALL 79 (195)
T ss_dssp CCHHHHHHHHHHHSCCSSCCCCCSHHHHHHHHHHHHHHHTCCSTTH-HHHHHHHHHSSSCHHHHHHHTCCCHHHHHHHHT
T ss_pred CCCCcCCCCceeCCCCCCCchhHHhhHHHHHHHHHHCCCCHHHHHH-HHHHHHHHHHHHHHHHcCCccchHHHHHHHHHH
Confidence 334444455555678999999999999999999999999 999999 788888999999999999999999999999999
Q ss_pred HHHHHhcccCC-cccccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 80 EKLYLMGLIRT-KWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 80 ~kL~~~Gll~~-~~~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
+|||+||++++ .++||+|++||+++|||+|||++||++|||+|+.+|+|+|.||||+|||++|++|||-
T Consensus 80 ~kL~~~Gll~e~~~~Ld~vl~l~~~~~le~RLD~~L~r~G~a~SR~~ArqlI~~GhV~VNG~~V~~Ps~~ 149 (195)
T 3iz6_C 80 RRMNRYGLLADGQNKLDYVLALTVENFLARRLQTLVFKAGMAKSIHHARVLIRQRHIRVGRQIVNIPSFM 149 (195)
T ss_dssp CSSSTTSHHHHHHHTTCCEETTEECCCTTSCCCSSCCCCCCHHHHSCTTSHHHHHSTTTSCCCCCCCCCC
T ss_pred HHHHHcCCCCccccCHHHHHhhhHHHHHHhhhhHHHHhccccCCHHHHHHHHHcCCEEECCEEeCCCCcC
Confidence 99999999975 6899999999999999999999999999999999999999999999999999999984
No 4
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D
Probab=100.00 E-value=9.5e-44 Score=281.56 Aligned_cols=134 Identities=23% Similarity=0.387 Sum_probs=128.2
Q ss_pred ccCCCCcccccccHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHhcccCC-c
Q psy13908 14 KKVDFISWEADNNLHEVKIMRRFGIQ-KRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRT-K 91 (149)
Q Consensus 14 kkv~f~~w~~~~~~~E~~l~~~YgLk-krE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~kL~~~Gll~~-~ 91 (149)
-++|++||++|++++|.++|++|||+ ++|.|+ |+++|++||++|+.|++||++||||++++.+||+||+++|++.+ +
T Consensus 12 ~~~p~~~w~~~~~~~E~~l~~~YgL~nk~e~w~-~~~~~~~iR~~ar~L~~l~~~d~~r~~~~~~ll~kl~~~g~~~~~k 90 (181)
T 2xzm_D 12 YSTPRRPYEKERLDNEMKLIGTFGLKNKREVWR-VQMILAKFRKAARELLTLDPKDPRRLFEGSALLRRMFKYGLLSEQE 90 (181)
T ss_dssp CCCCSSTTCHHHHHHHHHHHHHTTCCSHHHHHH-HHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHTTSSCTTC
T ss_pred cCCCCCCccccccHHHHHHHHHhCCCCHHHHHH-HHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhccccchh
Confidence 46899999999999999999999999 555566 99999999999999999999999999999999999999999976 7
Q ss_pred ccccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 92 WDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 92 ~~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
.+|+.+.+|++++|||+|||++|++.|||.|+.+|+|+|.||||+|||++|++|||-
T Consensus 91 qkl~~~~gl~~~~~le~RLD~vL~~~G~a~SR~~Ar~LI~~G~V~VNg~~V~~Ps~~ 147 (181)
T 2xzm_D 91 RKLDYVLGLTIHKLMERRLQTRVFKLNLANSIHHSRVLIRQRHIKVGKNLVNVPSFM 147 (181)
T ss_dssp CSTHHHHSCCHHHHHTTBHHHHHHHTTCSSSTTHHHHHTTTTCCEETTEECCCSCCB
T ss_pred hhHHHHhCcCcchhhccchhHHHHhccccCCHHHHHHHHHCCEEEECCEEECCCCcC
Confidence 889999999999999999999999999999999999999999999999999999983
No 5
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.68 E-value=7.5e-18 Score=114.70 Aligned_cols=46 Identities=43% Similarity=0.667 Sum_probs=45.0
Q ss_pred hhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 102 ASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 102 ~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
+++|||+|||++|++.|||+|+.+|+++|.||||+|||++|++|||
T Consensus 2 ~~~~l~~RLD~~l~~~gla~SR~~A~~lI~~G~V~Vng~~v~kps~ 47 (71)
T 2cqj_A 2 SSGSSGRRLPTVLLKLRMAQHLQAAVAFVEQGHVRVGPDVVTDPAF 47 (71)
T ss_dssp CSSCCEEEHHHHHHHTTCSSSHHHHHHHHHTTCEEETTBCCCCTTC
T ss_pred HHHHHHHHHHHHHHHhCCcCCHHHHHHHHHCCcEEECCEEECCCCC
Confidence 6899999999999999999999999999999999999999999998
No 6
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=99.46 E-value=7.9e-14 Score=111.69 Aligned_cols=46 Identities=17% Similarity=0.201 Sum_probs=44.1
Q ss_pred hhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 103 SSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 103 ~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
.++||+|||++|++.||+.|+.+|+|+|.||||.|||++|++|||-
T Consensus 84 l~~Le~RLD~~L~r~g~a~SR~~ArqLI~~G~V~VNG~~V~~pS~~ 129 (201)
T 3bbn_D 84 LQLLEMRLDNILFRLGMAPTIPGARQLVNHRHILVNGRIVDIPSYR 129 (201)
T ss_dssp THHHHSBTTTTTTTTTSSSSSHHHHHHHHTTCEEETTEECCCTTCB
T ss_pred HHHHHHHHHHHHHHcCCcCCHHHHHHHHhCCcEEeCCEEEeeccee
Confidence 4899999999999999999999999999999999999999999973
No 7
>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C
Probab=99.28 E-value=8.2e-13 Score=101.77 Aligned_cols=83 Identities=18% Similarity=0.159 Sum_probs=65.2
Q ss_pred cccHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHhcccCCcccccccccchhh
Q psy13908 24 DNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTAS 103 (149)
Q Consensus 24 ~~~~~E~~l~~~YgLkkrE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~kL~~~Gll~~~~~L~~vl~l~~~ 103 (149)
.++..+.++...|||..+ ..+++.+.|+.+.+.. ++ ++.
T Consensus 8 ~~l~~kqk~~~~yg~~e~--------q~~~~~~~a~~~~g~~---------~~------------------------~~~ 46 (159)
T 1c05_A 8 LQLQEKQKLRHMYGVNER--------QFRKTFEEAGKMPGKH---------GE------------------------NFM 46 (159)
T ss_dssp HHHHHHHHHHHTTTCCHH--------HHHHHHHHHTTSSSTH---------HH------------------------HHH
T ss_pred HHHHHHHHHHHHhCCCHH--------HHHHHHHHHHhccCCh---------hH------------------------HHH
Confidence 357788999999999832 2234555555544321 11 256
Q ss_pred hhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 104 SFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 104 ~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
++|+.|||.++++.|++.|..+|+++|.||||.|||++|++|++
T Consensus 47 ~~le~RLD~~L~~~g~~~SR~~ar~lI~~G~V~VNG~~v~~ps~ 90 (159)
T 1c05_A 47 ILLESRLDNLVYRLGLARTRRQARQLVTHGHILVDGSRVNIPSY 90 (159)
T ss_dssp HHHHHBHHHHHHHTTSCSSHHHHHHHHHTTCEEETTEECCCSSC
T ss_pred HHHHHHHHHHHHHcCCcCCHHHHHHHHHCCCEEECCEEeCcCCc
Confidence 78899999999999999999999999999999999999999997
No 8
>3r8n_D 30S ribosomal protein S4; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 1p6g_D 1p87_D 2aw7_D 2avy_D 2i2u_D 2i2p_D* 2qan_D* 2qb9_D* 2qbb_D* 2qbd_D 2qbf_D 2qbh_D* 2qbj_D* 2qou_D* 2qow_D* 2qoy_D* 2qp0_D* 2vho_D 2vhp_D 2wwl_D* ...
Probab=99.05 E-value=3.8e-11 Score=96.42 Aligned_cols=47 Identities=17% Similarity=0.123 Sum_probs=44.3
Q ss_pred hhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 101 TASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 101 ~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
++..+||.|||.+|++.|++.|+.+|+|+|.||||.|||++|++|||
T Consensus 88 ~ll~lle~RLD~~L~r~g~~~SR~~ArqLI~~G~V~VNG~~V~~ps~ 134 (205)
T 3r8n_D 88 NLLALLEGRLDNVVYRMGFGATRAEARQLVSHKAIMVNGRVVNIASY 134 (205)
T ss_dssp HHHHHHHTBTTHHHHTTSSCSSHHHHHHHHHTTCCBSSSSBCCCTTC
T ss_pred HHHHhhHhhHHHHHHHhcchhHHHHHHHHHHCCCEEECCEEEccCCc
Confidence 34568899999999999999999999999999999999999999997
No 9
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D* 1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D* 1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G 2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ...
Probab=99.02 E-value=1.7e-10 Score=92.49 Aligned_cols=45 Identities=22% Similarity=0.217 Sum_probs=42.3
Q ss_pred hhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 103 SSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 103 ~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.+.++.|||.++++.|++.|+.+|+|+|.||||.|||++|++|||
T Consensus 94 ~~~le~RLD~~L~~~g~~~SR~~arqLI~~G~V~VNG~~v~~ps~ 138 (209)
T 2vqe_D 94 LGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSY 138 (209)
T ss_dssp HHHHHTBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEECCCTTC
T ss_pred HHhHHHHHHHHHHHhcCcCCHHHHHHHHHCCCEEECCEEeCcCCc
Confidence 355789999999999999999999999999999999999999997
No 10
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6
Probab=98.06 E-value=2.4e-07 Score=62.84 Aligned_cols=40 Identities=15% Similarity=0.008 Sum_probs=38.5
Q ss_pred ccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 108 RRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 108 rRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.|||..+...|++.|..+|+++|.+|.|+|||+++++|++
T Consensus 21 ~RLdk~L~~~g~~~SR~~a~~lI~~G~V~VNG~~v~~~~~ 60 (79)
T 1p9k_A 21 VELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRC 60 (79)
T ss_dssp CCHHHHHHHHTSCSSSSTTSHHHHHHHHEETTBCCCCSSC
T ss_pred chHHHHHHHCCCCCCHHHHHHHHHCCEEEECCEEecCCCC
Confidence 6999999999999999999999999999999999999986
No 11
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}
Probab=97.93 E-value=3.5e-06 Score=67.96 Aligned_cols=33 Identities=15% Similarity=0.104 Sum_probs=31.5
Q ss_pred eccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 116 RNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 116 r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
|+|+|.|.++|+|.+.||||.|||+++++|+|+
T Consensus 17 rLgyA~t~rEarkIv~~~~I~VDGKvr~d~~yp 49 (213)
T 3kbg_A 17 YLKLSDKEREAARILANGLVKVDGKTVREKKFA 49 (213)
T ss_dssp HHHTTTCGGGHHHHHHTTCEEETTEECCCTTCE
T ss_pred hhcccccHHHHHHHHHCCCEEECCEEecccCCC
Confidence 679999999999999999999999999999984
No 12
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=97.92 E-value=4e-06 Score=68.83 Aligned_cols=33 Identities=12% Similarity=0.059 Sum_probs=31.5
Q ss_pred eccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 116 RNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 116 r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
++|+|.|.+||+|.+.||||.|||+++++|+|+
T Consensus 52 rLgyA~t~rEar~Iv~~~~I~VdGKvr~d~~yp 84 (243)
T 3j20_E 52 YLGYAKTAREARKILNEGKFLVDGRVRKDYKFP 84 (243)
T ss_dssp TSCCCSSHHHHHHHHHHCSCEETTEECCCSSCE
T ss_pred hhccccCHHHHHHHHHCCcEEECCEEeccccCC
Confidence 579999999999999999999999999999985
No 13
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}
Probab=97.47 E-value=1.6e-05 Score=54.85 Aligned_cols=39 Identities=15% Similarity=0.137 Sum_probs=35.2
Q ss_pred ccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 108 RRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 108 rRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.|||.++...+++.|...|+++|.+|.|.|||+++ .|++
T Consensus 1 ~RLD~~L~~~~~~~sR~~~~~li~~G~V~VNg~~~-~~~~ 39 (92)
T 2k6p_A 1 MRIDKFLQSVGLVKRRVLATDMCNVGAVWLNGSCA-KASK 39 (92)
T ss_dssp CBHHHHSTTTTSCCCCCSSCCHHHHTCCEETTEEC-CTTC
T ss_pred ChHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEEc-CCCC
Confidence 38899998888888999999999999999999998 6876
No 14
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A
Probab=97.44 E-value=6e-05 Score=56.04 Aligned_cols=40 Identities=18% Similarity=0.226 Sum_probs=36.4
Q ss_pred cccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 107 KRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 107 erRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
..|||..|...++..|...|.++|.+|+|.|||+++ .||+
T Consensus 8 ~~RLDk~L~~~~~~~SRs~a~~li~~G~V~VNG~~v-k~s~ 47 (133)
T 1dm9_A 8 EVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRS-KPSK 47 (133)
T ss_dssp CCBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEEC-CTTC
T ss_pred chhHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEEc-CCCC
Confidence 369999999888889999999999999999999997 7876
No 15
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis}
Probab=95.60 E-value=0.0055 Score=53.57 Aligned_cols=39 Identities=10% Similarity=-0.026 Sum_probs=35.1
Q ss_pred cccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 109 RLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 109 RL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.+-.++...|+++|-.+||.+|.+|-|+|||++|++|.+
T Consensus 357 ~~~~ll~~~gl~~S~~earr~i~~ggv~in~~~v~d~~~ 395 (432)
T 2jan_A 357 GIVDLLVASGLSASKGAARRTIHEGGVSVNNIRVDNEEW 395 (432)
T ss_dssp SHHHHHHHHTSCSSHHHHHHHHTTTCEEESSCEECCTTC
T ss_pred hHHHHHHHhCCcccHHHHHHHHHhCCEEECCEEccChhc
Confidence 355567899999999999999999999999999999875
No 16
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A
Probab=95.58 E-value=0.0021 Score=53.39 Aligned_cols=41 Identities=15% Similarity=0.013 Sum_probs=0.0
Q ss_pred cccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 107 KRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 107 erRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
..|||.++...+..-|..+|+++|.+|.|.|||++|..|++
T Consensus 16 g~RLd~~L~~~~~~~SR~~~~~lI~~G~V~VNG~~v~~~~~ 56 (325)
T 1v9f_A 16 GQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKE 56 (325)
T ss_dssp -----------------------------------------
T ss_pred CchHHHHHHhhccccCHHHHHHHHHCCCEEECCEEccCCCC
Confidence 47999999888778899999999999999999999888875
No 17
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A*
Probab=95.58 E-value=0.0056 Score=53.43 Aligned_cols=39 Identities=13% Similarity=0.115 Sum_probs=35.2
Q ss_pred cccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 109 RLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 109 RL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.+-.++...|++.|-.+||.+|.+|-|+|||++|++|.+
T Consensus 370 ~~~~~l~~~~l~~S~~earr~i~~ggv~vn~~~v~d~~~ 408 (432)
T 1h3f_A 370 WVARLFTLAGLTPSNAEARRLIQNRGLRLDGEVLTDPML 408 (432)
T ss_dssp EHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEECCCTTC
T ss_pred cHHHHHHHhCCcccHHHHHHHHHhCCEEECCEEecCccc
Confidence 355567889999999999999999999999999999975
No 18
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A*
Probab=95.32 E-value=0.0029 Score=54.97 Aligned_cols=39 Identities=13% Similarity=0.148 Sum_probs=0.0
Q ss_pred cccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 109 RLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 109 RL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.|..++...|+++|-.+||.+|.+|-|+|||++|++|.+
T Consensus 354 ~l~~lL~~agl~~SksEARRlI~~GgV~VNgekv~d~~~ 392 (420)
T 1jil_A 354 NIVEVLIETGISPSKRQAREDVNNGAIYINGERQQDVNY 392 (420)
T ss_dssp ---------------------------------------
T ss_pred cHHHHHHHcCCccCHHHHHHHHHhCCEEECCEEeccccc
Confidence 578888999999999999999999999999999999864
No 19
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E* 1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A
Probab=94.81 E-value=0.0049 Score=53.62 Aligned_cols=39 Identities=18% Similarity=0.106 Sum_probs=0.0
Q ss_pred cccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908 109 RLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE 147 (149)
Q Consensus 109 RL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~ 147 (149)
.+-.++...|+++|-.+||.+|.+|-|+|||++|++|.+
T Consensus 353 ~~~~~l~~~gl~~S~~earr~i~~ggv~in~~~v~d~~~ 391 (419)
T 2ts1_A 353 PLVELLVSAGISPSKRQAREDIQNGAIYVNGERLQDVGA 391 (419)
T ss_dssp ---------------------------------------
T ss_pred cHHHHHHHhCCCCCHHHHHHHHHhCCEEECCEEecCccc
Confidence 466778899999999999999999999999999999864
No 20
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4}
Probab=94.55 E-value=0.0082 Score=46.48 Aligned_cols=36 Identities=14% Similarity=0.191 Sum_probs=31.9
Q ss_pred cccceeeeccCCCChHHHHhhHhcCcEEECCeeeCC
Q psy13908 109 RLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGD 144 (149)
Q Consensus 109 RL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~ 144 (149)
-+-.+++..|+|.|-.+||.+|.+|-|+||+..|++
T Consensus 51 ~ivdlLv~aGLa~SKsEARRlI~qGGv~VNg~kv~~ 86 (164)
T 2ktl_A 51 TFSKVLWSAGLVASKSEGQRIINNNGAYVGSRPGVK 86 (164)
T ss_dssp SHHHHHHHHTSCSTHHHHHHHHHHTCEEEEECCSCC
T ss_pred cHHHHHHHhCcccCHHHHHHHHHhCCEEECCEeccc
Confidence 355667899999999999999999999999988855
No 21
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E
Probab=94.32 E-value=0.023 Score=46.97 Aligned_cols=33 Identities=24% Similarity=0.212 Sum_probs=30.8
Q ss_pred eccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 116 RNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 116 r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
++++|.|.++|+..+.||.|.|||++.+++-|+
T Consensus 51 ~LkyA~t~~EakkIl~q~~VkVDGkvrtD~~~P 83 (261)
T 3u5c_E 51 RLKYALNGREVKAILMQRHVKVDGKVRTDTTYP 83 (261)
T ss_dssp TTCCCSSSHHHHHHHTTTCEEETTBCCCCTTCE
T ss_pred hhcccccHHHHHHHHHCCcEEECCEEeccCCCC
Confidence 568999999999999999999999999999874
No 22
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=93.70 E-value=0.024 Score=46.91 Aligned_cols=47 Identities=19% Similarity=0.176 Sum_probs=34.8
Q ss_pred cccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908 93 DLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG 148 (149)
Q Consensus 93 ~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~ 148 (149)
+++.|+ .+.-||+- ++++|.|.++|+..+.||.|.|||++.+++-|+
T Consensus 37 kl~esl--PL~i~LRd-------~LkyA~t~~EakkIl~q~~VkVDGkvrtD~~~P 83 (265)
T 3iz6_D 37 KSRECL--PLILIIRN-------RLKYALTYREVISILMQRHVLVDGKVRTDKTYP 83 (265)
T ss_dssp --------CHHHHHHH-------HHTTSSCSSSTHHHHHTTCCEETTEECCCTTCC
T ss_pred cchhhe--eeHHHhhh-------hhcccccHHHHHHHHHCCcEEECCEEeccCCCC
Confidence 355553 33445554 578999999999999999999999999999886
No 23
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W
Probab=93.18 E-value=0.058 Score=44.53 Aligned_cols=33 Identities=18% Similarity=0.047 Sum_probs=30.6
Q ss_pred eccCCCChHHHHhhHhc--CcEEECCeeeCCCCCC
Q psy13908 116 RNKMVQQLRLATQFIEQ--AHVRVGPELEGDMIEG 148 (149)
Q Consensus 116 r~~~a~s~~~ArqlI~h--GhV~V~~~~V~~Ps~~ 148 (149)
++++|.|.++|+..+.+ |.|.|||++.+++-|+
T Consensus 51 ~LkyA~t~rEak~Il~q~~~~VkVDGkvr~D~~~P 85 (260)
T 2xzm_W 51 RLNYALNGRDVTLILNDKEQNVFVDGKVRRDKGYP 85 (260)
T ss_dssp TTCSCCSHHHHHHHTTSTTCCEEETTEECCCTTCE
T ss_pred hhccccchhHHHHHHhccCCeEEECCEEeccCCCC
Confidence 56889999999999999 9999999999998875
No 24
>3c6c_A 3-keto-5-aminohexanoate cleavage enzyme; DUF849 family protein, TIM beta/alpha-barrel fold, structura genomics; HET: MSE; 1.72A {Ralstonia eutropha}
Probab=31.37 E-value=67 Score=26.68 Aligned_cols=60 Identities=18% Similarity=0.007 Sum_probs=31.8
Q ss_pred HHHHHHhcccCCcccccccccc---------hhhhhhcccc--cceeeeccCCCC--hHHHHhhHhcCcEEECC
Q psy13908 79 LEKLYLMGLIRTKWDLENCNKV---------TASSFCKRRL--PVVMYRNKMVQQ--LRLATQFIEQAHVRVGP 139 (149)
Q Consensus 79 L~kL~~~Gll~~~~~L~~vl~l---------~~~~~lerRL--~~vv~r~~~a~s--~~~ArqlI~hGhV~V~~ 139 (149)
+..|.+.|+++...-+..|+++ ++..++ +.| +...--.|+-.+ .-.+..+..-||||||=
T Consensus 196 ~~~l~~~Gll~~p~~~~~vlGv~~g~p~~p~~L~~~~-~~lp~~~~wsv~g~Gr~q~p~~~~A~~~GGhvRVGl 268 (316)
T 3c6c_A 196 GKQLIEEGLIDGVPLFQMVLGVLWGAPASTETMIYQR-NLIPANAQWAAFGIGRDQMPMMAQAALLGGNVRVGL 268 (316)
T ss_dssp HHHHHHTTCSCSSCEEEEECSCTTSCCSCHHHHHHHH-TTSCTTSEEEEECCGGGHHHHHHHHHHHTCBEEEST
T ss_pred HHHHHHcCCCCCCceEEEEEecCCCCCCCHHHHHHHH-HhcCCCCeEEEEecCcchHHHHHHHHHcCCCeEEcc
Confidence 6667788888665556666654 222332 223 122222222222 23345667889999984
No 25
>2e6x_A TT1592, hypothetical protein TTHA1281; unknown function protein, NPPSFA, national project on protei structural and functional analyses; 2.00A {Thermus thermophilus}
Probab=30.03 E-value=31 Score=22.77 Aligned_cols=27 Identities=19% Similarity=0.310 Sum_probs=19.7
Q ss_pred cceeeeccCCCChHHH--------------HhhHhcCcEEE
Q psy13908 111 PVVMYRNKMVQQLRLA--------------TQFIEQAHVRV 137 (149)
Q Consensus 111 ~~vv~r~~~a~s~~~A--------------rqlI~hGhV~V 137 (149)
+.+++|.|+|++...- .+++..|.|+|
T Consensus 24 ~~vvVRvG~AsatprFa~LpRLrnv~daeve~~~~~G~vrv 64 (69)
T 2e6x_A 24 DVLVVRVGLASATPRFRELPRLLNLPEAEMRRLVQEGRVRV 64 (69)
T ss_dssp SCEEEEEEEGGGHHHHHHSCCCBCCCHHHHHHHHHTTCEEE
T ss_pred CcEEEEEeccccCchhhhchhhccCCHHHHHHHHHcCcEEE
Confidence 6678899999876543 56677777776
Done!