Query psy12294
Match_columns 123
No_of_seqs 105 out of 1017
Neff 4.1
Searched_HMMs 29240
Date Fri Aug 16 23:42:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12294.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12294hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_C Guanine nucleotide-bind 100.0 2.2E-43 7.4E-48 286.0 2.8 105 14-118 143-250 (254)
2 2xzm_E Ribosomal protein S5 co 100.0 5.3E-41 1.8E-45 276.7 1.6 104 16-119 146-251 (296)
3 3iz6_E 40S ribosomal protein S 100.0 4.5E-43 1.5E-47 286.6 -11.1 105 15-119 153-259 (274)
4 3j20_F 30S ribosomal protein S 100.0 1.1E-31 3.9E-36 215.6 2.8 84 15-98 131-216 (236)
5 3r8n_E 30S ribosomal protein S 100.0 9.7E-30 3.3E-34 192.2 2.8 74 21-98 68-143 (150)
6 3i1m_E 30S ribosomal protein S 99.9 2.7E-29 9.2E-34 192.8 2.0 75 21-99 77-153 (167)
7 1pkp_A Ribosomal protein S5; 2 99.9 7.4E-29 2.5E-33 187.5 3.4 68 23-91 79-148 (150)
8 2vqe_E 30S ribosomal protein S 99.9 2.1E-28 7E-33 187.1 2.6 74 22-99 73-148 (162)
9 3bbn_E Ribosomal protein S5; s 99.9 7.1E-28 2.4E-32 199.5 4.5 76 17-93 215-292 (308)
10 3p3c_A UDP-3-O-[3-hydroxymyris 58.4 4.6 0.00016 32.7 2.1 17 35-51 22-38 (274)
11 3uhm_A UDP-3-O-[3-hydroxymyris 57.5 5.2 0.00018 32.8 2.2 17 35-51 23-39 (299)
12 3p3g_A UDP-3-O-[3-hydroxymyris 57.5 5.2 0.00018 32.8 2.2 17 35-51 23-39 (300)
13 3gv2_A Ca, fusion protein cons 43.4 11 0.00037 31.4 2.1 37 86-122 137-174 (342)
14 3h47_A Ca, capsid protein P24; 41.6 8.8 0.0003 30.3 1.2 37 86-122 137-174 (231)
15 2jyl_A Capsid protein P24 (Ca) 40.9 19 0.00066 25.0 2.8 28 95-122 21-48 (105)
16 3ds4_A HIV-1 capsid protein; H 40.7 21 0.00073 23.7 2.9 26 97-122 4-29 (86)
17 1ajo_A CPA16M-127, circularly 34.7 17 0.00058 27.4 1.8 19 33-52 160-178 (214)
18 1eia_A EIAV capsid protein P26 33.6 17 0.00059 28.1 1.7 37 86-122 121-159 (207)
19 1qrj_B HTLV-I capsid protein; 32.4 30 0.001 26.5 2.9 37 86-122 105-142 (199)
20 1q90_N Cytochrome B6F complex 31.8 19 0.00064 20.5 1.2 14 1-14 3-16 (31)
21 1vf5_H Protein PET N; photosyn 30.2 15 0.00051 20.7 0.6 14 1-14 1-14 (29)
22 3g21_A GAG polyprotein, capsid 29.3 34 0.0011 23.0 2.3 21 102-122 8-28 (77)
23 1vk9_A Conserved hypothetical 20.3 18 0.00061 27.0 -0.4 70 42-113 59-131 (151)
24 2ljw_A ALR2454 protein; novel 20.2 40 0.0014 24.0 1.4 25 97-121 33-59 (110)
25 1d1d_A Protein (capsid protein 20.1 68 0.0023 25.6 2.9 30 93-122 170-199 (262)
No 1
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1, RACK1); translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B 3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Probab=100.00 E-value=2.2e-43 Score=285.98 Aligned_cols=105 Identities=39% Similarity=0.528 Sum_probs=100.9
Q ss_pred hcCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294 14 TSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS 91 (123)
Q Consensus 14 ~~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~ 91 (123)
|-|++++++|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||+||++|||++++|++||| ||+++|
T Consensus 143 yWg~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAGI~Dv~tks~Gst~t~~N~vKATf~AL~kty 222 (254)
T 3u5c_C 143 YWGTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKTRTLENTLKAAFVAIGNTY 222 (254)
T ss_dssp CSSSCCSSCCEESSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHTTCCCEEEEEESCTTCHHHHHHHHHHHHHGGG
T ss_pred cccccCCCCcceeeEEEeeecceEEEEecCCCCcCeecCcHHHHHHHhcCcceEEEEccccCCChHHHHHHHHHHHHhhh
Confidence 346889999999999999999999999999999999999999999999999999999999999888999999 999999
Q ss_pred cccCchhhhhcccccCchHHHHH-HHHH
Q psy12294 92 SYTETQCMQVLVSSHFPISESLN-TISE 118 (123)
Q Consensus 92 ~~~tP~~w~~~~~~~~P~~e~~d-~~~~ 118 (123)
+|+|||+|+++.|+++|||||+| +|.+
T Consensus 223 s~ltPdlw~e~~~~~~p~~e~~d~~l~~ 250 (254)
T 3u5c_C 223 GFLTPNLWAEQPLPVSPLDIYSDEASAQ 250 (254)
T ss_dssp GCCCGGGCSCCCCCCCHHHHTTTTSSCC
T ss_pred cccCHHHhhhcccCCCcchhhhhHHhhh
Confidence 99999999999999999999999 8753
No 2
>2xzm_E Ribosomal protein S5 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_E
Probab=100.00 E-value=5.3e-41 Score=276.67 Aligned_cols=104 Identities=38% Similarity=0.608 Sum_probs=99.7
Q ss_pred CceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccc
Q psy12294 16 GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSY 93 (123)
Q Consensus 16 g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~ 93 (123)
|++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+||| ||+++|+|
T Consensus 146 en~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~~r~VLelAGI~Dv~tKs~G~S~n~~N~vKATf~AL~k~~s~ 225 (296)
T 2xzm_E 146 GNKIANAHTIPQKITGKSGSVRIRLVPAPRGTGIVAAPIPKKVLQFAGVQDIYTSSQGCTRTRGNFLKATYYALANTYRY 225 (296)
T ss_dssp SSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHTTTCCCCEEEEESCCSCHHHHHHHHHHHHHHHHHS
T ss_pred cccCCCCCeeeEEEEEEECcEEEEEEECCCCcceecCcHHHHHHHhcCcCeEEEEcccCCCCccchhHHHHHHHHHHhcc
Confidence 4668899999999999999999999999999999999999999999999999999999777788999999 99999999
Q ss_pred cCchhhhhcccccCchHHHHHHHHHH
Q psy12294 94 TETQCMQVLVSSHFPISESLNTISEI 119 (123)
Q Consensus 94 ~tP~~w~~~~~~~~P~~e~~d~~~~~ 119 (123)
+||++|++++|+++|||||+|+|.+-
T Consensus 226 ~TPdlw~e~~~~~~p~~e~~d~l~~~ 251 (296)
T 2xzm_E 226 LTPDFWGKPEDNELPFETFSEFLHTK 251 (296)
T ss_dssp CCTTTCSBCCCCCCHHHHHTTGGGST
T ss_pred cCHHHHhhcccCCChHHHHHHHHhhh
Confidence 99999999999999999999999763
No 3
>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 2zkq_e
Probab=100.00 E-value=4.5e-43 Score=286.59 Aligned_cols=105 Identities=44% Similarity=0.627 Sum_probs=101.6
Q ss_pred cCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294 15 SGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS 92 (123)
Q Consensus 15 ~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~ 92 (123)
-|++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+||| ||+++|+
T Consensus 153 Wg~~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiag~~~r~vLelAGI~Dv~tks~Gst~~~~N~vKATf~AL~ktys 232 (274)
T 3iz6_E 153 WGNKIGQPHTVPCKVTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNFVKATFDCLMKTYG 232 (274)
T ss_dssp CCCCEEESSHHHHHHHHHHHHHSSCBCCCBCSSSCBSSCEECCCSSCEEEEESSSCCCSHHHHHHHHHTCSSCEEEEESC
T ss_pred ccccCCCCcccceEEEEEEcCEEEEEeeCCCCcCeecCcHHHHHHhhcCcceEEEEccccCCChhhhHHHHHHHHHhhhc
Confidence 46899999999999999999999999999999999999999999999999999999999998888999999 9999999
Q ss_pred ccCchhhhhcccccCchHHHHHHHHHH
Q psy12294 93 YTETQCMQVLVSSHFPISESLNTISEI 119 (123)
Q Consensus 93 ~~tP~~w~~~~~~~~P~~e~~d~~~~~ 119 (123)
|+|||+|++++|+++|||||+|||.+-
T Consensus 233 ~ltPdlw~e~~~~~~p~~e~~d~l~~~ 259 (274)
T 3iz6_E 233 FLTPDFWRDTKFVKSPFQEYTDLLAKP 259 (274)
T ss_dssp CCHHHHHHHHHHHSSCCCCHHHHHHCC
T ss_pred ccChHHhhhcccCCCchhhHHHHHhhc
Confidence 999999999999999999999999763
No 4
>3j20_F 30S ribosomal protein S5P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.96 E-value=1.1e-31 Score=215.58 Aligned_cols=84 Identities=35% Similarity=0.472 Sum_probs=81.0
Q ss_pred cCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294 15 SGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS 92 (123)
Q Consensus 15 ~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~ 92 (123)
-|++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+||| ||+++++
T Consensus 131 W~~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAGI~Dv~tks~Gst~n~~N~vKATf~AL~k~~s 210 (236)
T 3j20_F 131 WECRCRRPHSVPFAVEGKEGSVRVRLIPGPRGLGLVIGDVGKKILRLAGVQDVWSQTFGETRTTVNFAKAVFNALYNTNR 210 (236)
T ss_dssp SSSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHHHTCCCCEEEEESCCSCHHHHHHHHHHHHHHHHH
T ss_pred ccccCCCCCceeeEEEEEECCEEEEEEcCCCcCCcccCcHHHHHHHhCCcceEEEEcccCCCCHHHHHHHHHHHHHhccc
Confidence 46899999999999999999999999999999999999999999999999999999999998888999999 9999999
Q ss_pred ccCchh
Q psy12294 93 YTETQC 98 (123)
Q Consensus 93 ~~tP~~ 98 (123)
|++++.
T Consensus 211 ~~t~~~ 216 (236)
T 3j20_F 211 VAISPE 216 (236)
T ss_dssp SCCTTT
T ss_pred ccChHH
Confidence 999776
No 5
>3r8n_E 30S ribosomal protein S5; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_E 3fih_E* 3iy8_E 3j18_E* 2wwl_E 3oar_E 3oaq_E 3ofb_E 3ofa_E 3ofp_E 3ofx_E 3ofy_E 3ofo_E 3r8o_E 4a2i_E 4gd1_E 4gd2_E 2qal_E* 1p6g_E 1p87_E ...
Probab=99.95 E-value=9.7e-30 Score=192.20 Aligned_cols=74 Identities=24% Similarity=0.338 Sum_probs=70.7
Q ss_pred CCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchh
Q psy12294 21 QHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQC 98 (123)
Q Consensus 21 ~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~ 98 (123)
++|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||+||++||||+ +|++||| ||++++ ||+.
T Consensus 68 ~~~Tip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aGI~D~~tk~~Gstn~-~N~vkAt~~aL~~~~---s~~~ 143 (150)
T 3r8n_E 68 NNGTLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNP-INVVRATIDGLENMN---SPEM 143 (150)
T ss_dssp SSSSCSSCEEEEETTEEEEEECCCCSSCCBSCTTTHHHHHHTCCSSCEEEEEECCCH-HHHHHHHHHHHHHSC---CSSH
T ss_pred CCCeeeeEEeeEEccEEEEEEcCCCcCceecCcHHHHHHHhCCcceEEEEeccCCCh-hhHHHHHHHHHHccC---CHHH
Confidence 789999999999999999999999999999999999999999999999999999997 6999999 999998 6654
No 6
>3i1m_E 30S ribosomal protein S5; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_E* 1vs5_E 3i1o_E 3i1q_E 3i1s_E 3i1z_E 3i21_E 3izv_I* 3izw_I* 3kc4_E 3or9_E 3ora_E 3sfs_E* 3uoq_E* 4gaq_E* 4gas_E*
Probab=99.95 E-value=2.7e-29 Score=192.79 Aligned_cols=75 Identities=24% Similarity=0.341 Sum_probs=70.9
Q ss_pred CCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchh
Q psy12294 21 QHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQC 98 (123)
Q Consensus 21 ~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~ 98 (123)
++|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||+||++||||+ +|++||| ||++++ ||+.
T Consensus 77 ~~~Tip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aGI~Dv~tk~~Gstn~-~N~vkAtf~aL~~~~---s~~~ 152 (167)
T 3i1m_E 77 NNGTLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNP-INVVRATIDGLENMN---SPEM 152 (167)
T ss_dssp BTTBCSSCEEEEETTEEEEEECCCCSSSCBCCSSSSSHHHHHTCCSCEEEEEECCCH-HHHHHHTHHHHHSCC---CSTT
T ss_pred CCCeeeeEeeeeeccEEEEEEcCCCccceecCcHHHHHHHhCCcceEEEEeccCCCh-hHHHHHHHHHHHhcC---CHHH
Confidence 689999999999999999999999999999999999999999999999999999995 6999999 999998 6654
Q ss_pred h
Q psy12294 99 M 99 (123)
Q Consensus 99 w 99 (123)
.
T Consensus 153 v 153 (167)
T 3i1m_E 153 V 153 (167)
T ss_dssp T
T ss_pred H
Confidence 3
No 7
>1pkp_A Ribosomal protein S5; 2.80A {Geobacillus stearothermophilus} SCOP: d.14.1.1 d.50.1.2 PDB: 1eg0_B 1dv4_E* 1qd7_D
Probab=99.95 E-value=7.4e-29 Score=187.50 Aligned_cols=68 Identities=25% Similarity=0.432 Sum_probs=66.2
Q ss_pred CeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294 23 KVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS 91 (123)
Q Consensus 23 ~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~ 91 (123)
|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||++|++||+|++ |++||| ||++++
T Consensus 79 ~Tip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aGI~Dv~tk~~Gs~n~~-N~vkAt~~aL~~~~ 148 (150)
T 1pkp_A 79 TTIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGISDILSKSIGSNTPI-NMVRATFDGLKQLK 148 (150)
T ss_dssp TBCSSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHHTCCSEEEEECSCCSHH-HHHHHHHHHHHHCC
T ss_pred ceeeEEEEEEECCEEEEEEECCCCCccccCcHHHHHHHhcCcceEEEEecCCCChh-HHHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999765 999999 999987
No 8
>2vqe_E 30S ribosomal protein S5; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1fka_E 1gix_H* 1hnw_E* 1hnx_E* 1hnz_E* 1hr0_E 1ibk_E* 1ibl_E* 1ibm_E 1jgo_H* 1jgp_H* 1jgq_H* 1ml5_H* 1xmo_E* 1xmq_E* 1xnq_E* 1xnr_E* 1yl4_H 2b64_E* 2b9m_E* ...
Probab=99.94 E-value=2.1e-28 Score=187.11 Aligned_cols=74 Identities=23% Similarity=0.428 Sum_probs=69.4
Q ss_pred CCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchhh
Q psy12294 22 HKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQCM 99 (123)
Q Consensus 22 ~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~w 99 (123)
+|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||++|++||+|++ |++||| ||++++ +|+..
T Consensus 73 ~~TIp~~v~gk~gs~~V~l~Pap~GtGiiag~~~r~vl~~aGI~Dv~tk~~Gs~n~~-N~vkAt~~aL~~~~---s~~~v 148 (162)
T 2vqe_E 73 NGTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPI-NIAYATMEALRQLR---TKADV 148 (162)
T ss_dssp TTSCSSCEEEEETTEEEEEEECCTTSCEESCHHHHHHHHTTTCCSEEEEEEECCCHH-HHHHHHHHHHHHCC---CHHHH
T ss_pred CCcccEEEEEEeCcEEEEEEECCCCcceecCcHHHHHHHhcCccceEEEecCCCCcc-hHHHHHHHHHHhcC---CHHHH
Confidence 489999999999999999999999999999999999999999999999999998765 999999 999997 66553
No 9
>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=99.94 E-value=7.1e-28 Score=199.49 Aligned_cols=76 Identities=22% Similarity=0.379 Sum_probs=72.2
Q ss_pred ceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccc
Q psy12294 17 ILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSY 93 (123)
Q Consensus 17 ~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~ 93 (123)
.++.++|||||+|+|||||++|+|+|||+|||||||+++|+|||+|||+||++|++||+|++ |++||| ||++++++
T Consensus 215 V~r~~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~vr~VLelAGIkDv~tKs~GStn~l-N~vKATf~AL~k~~s~ 292 (308)
T 3bbn_E 215 VPMTKYLTFPHRNEADYGAARVMLRPAAPGTGVIAGGAVRTVLEMAGVENALGKQLGSNNAL-NNARATIVAVQTMRQF 292 (308)
T ss_dssp CCCCSSSBCSSCEEEEETTEEEEEEECCTTCCEECCTTTHHHHTTTTCCBEEEEEEECCCTT-TTTTHHHHHHHTCCCH
T ss_pred EecCCCcccceEEEEEEeeEEEEEEECCCCCceecCcHHHHHHHhcCcceEEEeccCCCCch-hHHHHHHHHHHhcCCH
Confidence 35678999999999999999999999999999999999999999999999999999999988 999999 99999844
No 10
>3p3c_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; lipid A biosynthesis, lipid A synthesis, LPXC, BAAB sandwich hydrolase; HET: 3P3; 1.25A {Aquifex aeolicus} PDB: 1xxe_A* 2jt2_A* 1p42_A* 1yh8_A* 1yhc_A* 3p76_A* 2ies_A* 2ier_A* 2o3z_A* 2j65_A* 2go3_A* 2go4_A*
Probab=58.36 E-value=4.6 Score=32.74 Aligned_cols=17 Identities=29% Similarity=0.364 Sum_probs=14.7
Q ss_pred ceEEEeecCCCcceEee
Q psy12294 35 SVQVRLIPAPRGTGIVG 51 (123)
Q Consensus 35 s~~V~L~PAp~GtGIVA 51 (123)
.+++.|+|||.++||+=
T Consensus 22 ~v~ltl~PA~~~tGi~F 38 (274)
T 3p3c_A 22 YSKLIIHPEKEGTGIRF 38 (274)
T ss_dssp EEEEEEEECCTTCCEEE
T ss_pred EEEEEEEeCCCCCCEEE
Confidence 56789999999999974
No 11
>3uhm_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; amidohydrolases, anti-bacterial agents, bacteria, catalytic drug design; HET: RFN; 1.26A {Pseudomonas aeruginosa} PDB: 2ves_A* 3u1y_A* 3p3e_A*
Probab=57.51 E-value=5.2 Score=32.83 Aligned_cols=17 Identities=53% Similarity=0.634 Sum_probs=14.6
Q ss_pred ceEEEeecCCCcceEee
Q psy12294 35 SVQVRLIPAPRGTGIVG 51 (123)
Q Consensus 35 s~~V~L~PAp~GtGIVA 51 (123)
.+++.|+|||.++||+=
T Consensus 23 ~v~ltl~PA~~~tGi~F 39 (299)
T 3uhm_A 23 KVYLTLKPAPVDTGIVF 39 (299)
T ss_dssp EEEEEEECCCTTCCEEE
T ss_pred EEEEEEEeCCCCCCEEE
Confidence 56789999999999973
No 12
>3p3g_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; lipid A biosynthesis, lipid A synthesis, LPXC, BAAB sandwich hydrolase; HET: 3P3 UKW; 1.65A {Escherichia coli} PDB: 3ps1_A* 3ps2_A* 3ps3_A* 3nzk_A*
Probab=57.48 E-value=5.2 Score=32.84 Aligned_cols=17 Identities=41% Similarity=0.694 Sum_probs=14.7
Q ss_pred ceEEEeecCCCcceEee
Q psy12294 35 SVQVRLIPAPRGTGIVG 51 (123)
Q Consensus 35 s~~V~L~PAp~GtGIVA 51 (123)
.+++.|+|||.++||+=
T Consensus 23 ~v~ltl~PA~~~tGi~F 39 (300)
T 3p3g_A 23 KVTLTLRPAPANTGVIY 39 (300)
T ss_dssp EEEEEEECCCTTCCEEE
T ss_pred EEEEEEEeCCCCCCEEE
Confidence 56789999999999973
No 13
>3gv2_A Ca, fusion protein consisting of capsid protein P24, carbon dioxide-concentrating mechanism...; hexameric retroviral capsid; 7.00A {Human immunodeficiency virus type 1}
Probab=43.39 E-value=11 Score=31.42 Aligned_cols=37 Identities=8% Similarity=0.150 Sum_probs=28.3
Q ss_pred eecccccccC-chhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 86 TQHETSSYTE-TQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 86 AL~~~~~~~t-P~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
||.+...+.. +..|.-..=.+.||.+|.|.+.+-|++
T Consensus 137 ~l~ki~~m~~P~s~~~IkQGPkEPf~DfVdRl~kal~~ 174 (342)
T 3gv2_A 137 GLNKIVRMYSPTSILDIRQGPKEPFRDYVDRFYKTLRA 174 (342)
T ss_dssp HHHHHHTTTCSSCGGGCCCCTTCCHHHHHHHHHHHHHH
T ss_pred HHHhccccccccchhhhccCCCCcHHHHHHHHHHHHHh
Confidence 6665554444 455888888999999999999998874
No 14
>3h47_A Ca, capsid protein P24; hexamer, engineered disulfide bonds, viral protein; 1.90A {Human immunodeficiency virus type 1} PDB: 3h4e_A 2lf4_A 3mge_A 3p05_A 3p0a_A 3dik_A 3nte_A 1e6j_P
Probab=41.61 E-value=8.8 Score=30.30 Aligned_cols=37 Identities=8% Similarity=0.150 Sum_probs=27.8
Q ss_pred eecccccccC-chhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 86 TQHETSSYTE-TQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 86 AL~~~~~~~t-P~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
||.+...+.. +..|.-..=.+.||.+|.|.+.+-+++
T Consensus 137 ~l~kivk~~~P~s~~~IkQGpkEPf~DfV~Rl~kal~~ 174 (231)
T 3h47_A 137 GLNKIVRMYSPTSILDIRQGPKEPFRDYVDRFYKTLRA 174 (231)
T ss_dssp HHHHHHHHHCCSCGGGCCCCTTCCHHHHHHHHHHHHHH
T ss_pred HHHHHhhcccccchhhhccCCCCcHHHHHHHHHHHHHh
Confidence 6655443334 455778888999999999999998874
No 15
>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization domain, CTD, 3D- NMR, capsid protein (Ca), double mutant; NMR {Human immunodeficiency virus 1} PDB: 2k1c_A* 2l6e_A*
Probab=40.93 E-value=19 Score=25.00 Aligned_cols=28 Identities=11% Similarity=0.221 Sum_probs=21.0
Q ss_pred CchhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 95 ETQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 95 tP~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
.+..|.-..=.+.||.+|.|-+-|.|++
T Consensus 21 p~si~~IkQGpKEPf~dyVdR~~k~l~a 48 (105)
T 2jyl_A 21 MTSILDIRQGPKEPFRDYVDRFYKTLRA 48 (105)
T ss_dssp -CCGGGCCCCSSSCHHHHHHHHHHHHHH
T ss_pred CcchhhhhcCCCCcHHHHHHHHHHHHHH
Confidence 3445666667799999999988887764
No 16
>3ds4_A HIV-1 capsid protein; HIV, mutant, polyprotein, complex(viral protein/peptide), mainly alpha; 1.12A {Human immunodeficiency virus 1} PDB: 3dph_A 1a43_A 2xt1_A 2buo_A 3lry_A 2kod_A 3ds1_A 3dtj_A 3ds0_A 3ds5_A 3ds2_A 3ds3_A 2jo0_A 2jyg_A 2xxm_A 2xv6_A 2ont_A 1aum_A 1a8o_A 4arg_B ...
Probab=40.69 E-value=21 Score=23.70 Aligned_cols=26 Identities=8% Similarity=0.231 Sum_probs=20.7
Q ss_pred hhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 97 QCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 97 ~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
..|.-..=.+.||.+|.|.+.+-|+.
T Consensus 4 s~~~i~QGpkEpf~dfv~rl~k~l~~ 29 (86)
T 3ds4_A 4 SILDIRQGPKEPFRDYVDRFYKTLRA 29 (86)
T ss_dssp CGGGCCCCTTSCHHHHHHHHHHHHHH
T ss_pred hhhccccCCCCcHHHHHHHHHHHHHH
Confidence 34566667789999999999988864
No 17
>1ajo_A CPA16M-127, circularly permuted (1-3,1-4)-beta-D-glucan 4- glucanohydrolase CPA16M-127; glucanase, circular permutation; 2.07A {Paenibacillus macerans} SCOP: b.29.1.2
Probab=34.67 E-value=17 Score=27.40 Aligned_cols=19 Identities=42% Similarity=0.637 Sum_probs=15.5
Q ss_pred ecceEEEeecCCCcceEeeC
Q psy12294 33 CGSVQVRLIPAPRGTGIVGA 52 (123)
Q Consensus 33 ~gs~~V~L~PAp~GtGIVAg 52 (123)
+|...+.|+|++ |.|||.+
T Consensus 160 ~G~~~~~~K~~~-~~G~v~a 178 (214)
T 1ajo_A 160 YGLYEVSMKPAK-NTGIVSS 178 (214)
T ss_dssp SEEEEEEEECCC-CTTEEEE
T ss_pred EEEEEEEEEcCC-CCcEEEE
Confidence 677899999755 9999965
No 18
>1eia_A EIAV capsid protein P26; viral capsid, HIV, lentivirus, viral protein; 2.70A {Equine infectious anemia virus} SCOP: a.28.3.1 a.73.1.1 PDB: 2eia_A
Probab=33.63 E-value=17 Score=28.09 Aligned_cols=37 Identities=11% Similarity=0.151 Sum_probs=28.8
Q ss_pred eeccc-c-cccCchhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 86 TQHET-S-SYTETQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 86 AL~~~-~-~~~tP~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
||.+. . .|..+..|.-..=.+.||.+|.|-+-|.|++
T Consensus 121 ~l~k~v~~~~sp~s~~~IkQGpKEPf~dfVdR~~k~l~~ 159 (207)
T 1eia_A 121 AMSEGIKVMIGKPKAQNIRQGAKEPYPEFVDRLLSQIKS 159 (207)
T ss_dssp HHHHHHHHHHTSCCGGGCCCCTTCCHHHHHHHHHHHHHT
T ss_pred HHHHHHHHhcccccccccccCCCCcHHHHHHHHHHHHHh
Confidence 77774 3 2556677877888899999999999888764
No 19
>1qrj_B HTLV-I capsid protein; retrovirus, two-domain protein, alpha helical protein, heteronuclear spectroscopy; NMR {Human t-cell lymphotrophic virus TYPE1} SCOP: a.28.3.1 a.73.1.1
Probab=32.43 E-value=30 Score=26.47 Aligned_cols=37 Identities=8% Similarity=0.092 Sum_probs=26.2
Q ss_pred eecccccccC-chhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 86 TQHETSSYTE-TQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 86 AL~~~~~~~t-P~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
|+.++..+.+ +..|.-..=.+.||.+|.|-+-|-|+.
T Consensus 105 a~~ki~~~~~~~s~~~IkQGpkEPf~dfVdR~~k~l~a 142 (199)
T 1qrj_B 105 AFAALPGSAKDPSWASILQGLEEPYHAFVERLNIALDN 142 (199)
T ss_dssp HHHTSSSSCCCCSGGGCCBCTTSCHHHHHHHHHHHHHT
T ss_pred HHHHHhcccCCCCcchhhcCCCCcHHHHHHHHHHHHHh
Confidence 5555554444 445555666799999999999887764
No 20
>1q90_N Cytochrome B6F complex subunit PETN; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.27.1
Probab=31.84 E-value=19 Score=20.52 Aligned_cols=14 Identities=21% Similarity=0.356 Sum_probs=12.3
Q ss_pred CchhhHhhhhhhhh
Q psy12294 1 MDFLQLFWGHLMVT 14 (123)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (123)
||.+.+.|.-+||.
T Consensus 3 mdivsl~Waalmvv 16 (31)
T 1q90_N 3 PAIVQIGWAATCVM 16 (31)
T ss_dssp CHHHHHHHHHHHHH
T ss_pred ceeeeHHHHHHHHH
Confidence 89999999999874
No 21
>1vf5_H Protein PET N; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.23.27.1 PDB: 2d2c_H* 2e74_H* 2e75_H* 2e76_H* 2zt9_H*
Probab=30.16 E-value=15 Score=20.65 Aligned_cols=14 Identities=36% Similarity=0.515 Sum_probs=10.5
Q ss_pred CchhhHhhhhhhhh
Q psy12294 1 MDFLQLFWGHLMVT 14 (123)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (123)
||.+.+.|.-+||.
T Consensus 1 mdivsl~Waalmvv 14 (29)
T 1vf5_H 1 MEIDVLGWVALLVV 14 (29)
T ss_dssp --CTTHHHHHHHHH
T ss_pred CcchhHHHHHHHHH
Confidence 89999999998874
No 22
>3g21_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 0.90A {Rous sarcoma virus} PDB: 3g1i_A 3g28_A 3g29_A 3g26_A 3g0v_A
Probab=29.34 E-value=34 Score=22.99 Aligned_cols=21 Identities=10% Similarity=0.128 Sum_probs=16.7
Q ss_pred cccccCchHHHHHHHHHHhhc
Q psy12294 102 LVSSHFPISESLNTISEILES 122 (123)
Q Consensus 102 ~~~~~~P~~e~~d~~~~~~~~ 122 (123)
..=.+.||.+|.|.+.+-|+.
T Consensus 8 ~QGPkEPF~dfVdRl~kal~~ 28 (77)
T 3g21_A 8 MQGPSESFVDFANRLIKAVEG 28 (77)
T ss_dssp CCCTTCCHHHHHHHHHHHHHT
T ss_pred ccCCCccHHHHHHHHHHHHHH
Confidence 334578999999999998763
No 23
>1vk9_A Conserved hypothetical protein TM1506; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; HET: UNL; 2.70A {Thermotoga maritima} SCOP: c.97.1.3
Probab=20.32 E-value=18 Score=27.04 Aligned_cols=70 Identities=9% Similarity=-0.033 Sum_probs=51.2
Q ss_pred cCCCcceE---eeCChhHHHHHhcCCceeeeccCCCCCCcccchhcceecccccccCchhhhhcccccCchHHHH
Q psy12294 42 PAPRGTGI---VGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESL 113 (123)
Q Consensus 42 PAp~GtGI---VAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kATAL~~~~~~~tP~~w~~~~~~~~P~~e~~ 113 (123)
|.-+|.-| |.|.++-.++-+.||++|++...... .+ .+.+...++-.|..+.|..|..+.---+|+.+..
T Consensus 59 ~~L~ga~vADKVVGKAAA~Lmv~ggV~~VyA~VISe~-Al-~lL~~~GI~v~Y~~~Vp~I~NRd~tg~CP~E~~v 131 (151)
T 1vk9_A 59 DNLEGSLVIDKMVGKAAASFLLKMKPDHIHAKVISKP-AL-KLMNEYGQSFSYDEKIPFVLGKDGKSMCPFEKLV 131 (151)
T ss_dssp SCCTTCEEEEEEECHHHHHHHHHHCCSEEEEEEEEHH-HH-HHHHHTTCCEEEEEEESSCBCSSSSSBCHHHHHH
T ss_pred cCccCCEehHHHHhHHHHHHHHhcChheehhHHhhHH-HH-HHHHHcCCceeeeeecceeEccCCCCCCcHHHHH
Confidence 44455544 34677778999999999999876543 23 5555557777888888988888888888887754
No 24
>2ljw_A ALR2454 protein; novel fold, structural genomics, northeast structural genomi consortium, NESG, PSI-biology, protein structure initiative function; NMR {Nostoc SP}
Probab=20.20 E-value=40 Score=24.03 Aligned_cols=25 Identities=16% Similarity=0.337 Sum_probs=20.1
Q ss_pred hhhhhcccccCchHH--HHHHHHHHhh
Q psy12294 97 QCMQVLVSSHFPISE--SLNTISEILE 121 (123)
Q Consensus 97 ~~w~~~~~~~~P~~e--~~d~~~~~~~ 121 (123)
-||+-....+.|+.| |-.+|..|.|
T Consensus 33 VMW~yLeQ~SFPltE~eY~~hL~~va~ 59 (110)
T 2ljw_A 33 VMWKYLEQASFPMNETEYQEHLDSVAN 59 (110)
T ss_dssp EEEEETTSTTCSSCHHHHHHHHHHHHH
T ss_pred eehHhhccCCCCCCHHHHHHHHHHHHH
Confidence 468888899999876 8888887765
No 25
>1d1d_A Protein (capsid protein); two independent domains helical bundles, virus/viral protein; NMR {Rous sarcoma virus} SCOP: a.28.3.1 a.73.1.1
Probab=20.07 E-value=68 Score=25.64 Aligned_cols=30 Identities=7% Similarity=0.027 Sum_probs=23.5
Q ss_pred ccCchhhhhcccccCchHHHHHHHHHHhhc
Q psy12294 93 YTETQCMQVLVSSHFPISESLNTISEILES 122 (123)
Q Consensus 93 ~~tP~~w~~~~~~~~P~~e~~d~~~~~~~~ 122 (123)
+..+..+.-..-.+-||.+|.|-+-|-|+.
T Consensus 170 ~s~~si~~IkQGPkEpf~dfVdRl~kalra 199 (262)
T 1d1d_A 170 EPAGPWADITQGPSESFVDFANRLIKAVEG 199 (262)
T ss_dssp CCCCTTTSCCCCSSSCHHHHHHHHHHHHHT
T ss_pred CCCCCHhHhhhcCCCcHHHHHHHHHHHHHh
Confidence 444555677778899999999999998864
Done!