Query 042741
Match_columns 166
No_of_seqs 105 out of 359
Neff 6.1
Searched_HMMs 29240
Date Mon Mar 25 15:39:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042741.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042741hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ayh_B DNA-directed RNA polyme 100.0 2.7E-44 9.4E-49 290.1 18.2 160 1-166 1-196 (203)
2 2ckz_B C25, DNA-directed RNA p 100.0 6.4E-43 2.2E-47 285.4 20.0 160 1-166 1-205 (218)
3 4ayb_E DNA-directed RNA polyme 100.0 1.2E-41 4E-46 268.8 16.5 156 1-166 1-169 (180)
4 3h0g_G DNA-directed RNA polyme 100.0 1.5E-40 5.3E-45 261.8 15.3 153 1-166 1-169 (172)
5 2c35_B Human RPB7, DNA-directe 100.0 6.2E-34 2.1E-38 223.3 19.6 153 1-166 1-168 (172)
6 1go3_E DNA-directed RNA polyme 100.0 2.3E-33 7.7E-38 222.3 19.2 157 1-166 1-170 (187)
7 1y14_B B16, RPB7, DNA-directed 100.0 8.5E-34 2.9E-38 222.7 16.0 153 1-166 1-168 (171)
8 2b8k_G B16, DNA-directed RNA p 100.0 3.6E-33 1.2E-37 227.4 15.9 153 1-166 1-168 (215)
9 2rf4_A DNA-directed RNA polyme 100.0 2.3E-30 7.8E-35 210.5 16.4 145 1-162 37-213 (214)
10 2ja9_A Exosome complex exonucl 94.7 0.068 2.3E-06 41.5 6.3 52 83-145 3-68 (175)
11 2cqo_A Nucleolar protein of 40 93.1 0.03 1E-06 40.7 1.3 59 77-145 12-84 (119)
12 2ba0_A Archeal exosome RNA bin 93.0 0.14 4.8E-06 41.2 5.4 52 83-143 53-117 (229)
13 2k52_A Uncharacterized protein 92.6 0.44 1.5E-05 31.6 6.6 21 127-147 44-64 (80)
14 2eqs_A ATP-dependent RNA helic 92.0 0.15 5E-06 35.8 3.8 53 82-143 7-75 (103)
15 2khi_A 30S ribosomal protein S 91.6 0.24 8.1E-06 35.3 4.6 62 76-146 19-93 (115)
16 2je6_I RRP4, exosome complex R 90.9 0.25 8.4E-06 40.3 4.5 55 82-143 69-136 (251)
17 1wi5_A RRP5 protein homolog; S 90.7 0.14 4.7E-06 36.7 2.5 52 85-145 19-84 (119)
18 2z0s_A Probable exosome comple 90.5 0.13 4.5E-06 41.4 2.5 55 83-143 62-129 (235)
19 2nn6_I 3'-5' exoribonuclease C 89.8 0.58 2E-05 37.0 5.8 60 83-143 77-150 (209)
20 2k4k_A GSP13, general stress p 88.6 1.2 4.2E-05 32.3 6.4 51 84-144 4-67 (130)
21 3cdi_A Polynucleotide phosphor 88.3 0.091 3.1E-06 49.1 0.0 88 43-144 585-687 (723)
22 2a19_A EIF-2- alpha, eukaryoti 88.2 1.8 6.2E-05 33.2 7.4 52 85-146 13-79 (175)
23 4aid_A Polyribonucleotide nucl 88.0 0.027 9.1E-07 52.7 -3.7 80 54-144 603-697 (726)
24 1kl9_A Eukaryotic translation 87.7 1.3 4.6E-05 34.3 6.4 51 85-145 13-78 (182)
25 2khj_A 30S ribosomal protein S 87.4 1.9 6.4E-05 30.1 6.5 62 84-146 28-93 (109)
26 2nn6_H Exosome complex exonucl 86.6 0.26 9E-06 41.5 1.9 58 83-143 91-164 (308)
27 3m7n_A Putative uncharacterize 85.1 0.93 3.2E-05 34.8 4.2 15 127-141 110-124 (179)
28 1e3p_A Guanosine pentaphosphat 82.2 0.038 1.3E-06 51.9 -5.7 87 44-144 624-731 (757)
29 2id0_A Exoribonuclease 2; RNAs 75.8 8 0.00027 35.3 7.7 49 98-147 585-636 (644)
30 3aev_A Translation initiation 74.8 7.8 0.00027 31.8 6.7 53 84-146 8-75 (275)
31 1q8k_A Eukaryotic translation 74.0 10 0.00035 31.7 7.3 21 125-145 56-76 (308)
32 2bh8_A 1B11; transcription, mo 74.0 1.1 3.9E-05 31.2 1.2 36 58-94 27-68 (101)
33 2wp8_J Exosome complex exonucl 71.5 4.9 0.00017 38.7 5.3 47 98-144 911-964 (977)
34 1luz_A Protein K3, protein K2; 64.9 4.2 0.00015 27.5 2.6 19 128-147 57-75 (88)
35 2vnu_D Exosome complex exonucl 57.0 9.9 0.00034 35.4 4.4 48 98-145 694-748 (760)
36 3cw2_C Translation initiation 56.8 4 0.00014 33.3 1.5 18 127-144 56-73 (266)
37 3psi_A Transcription elongatio 54.4 18 0.00063 35.6 5.9 51 85-145 900-964 (1219)
38 2nn6_G Exosome complex exonucl 47.4 23 0.00079 29.3 4.7 50 83-143 123-185 (289)
39 3bzc_A TEX; helix-turn-helix, 46.6 6.2 0.00021 37.2 1.2 20 126-145 696-715 (785)
40 1hh2_P NUSA, N utilization sub 44.1 59 0.002 27.5 6.8 19 128-146 171-189 (344)
41 1k0r_A NUSA; two component arr 42.1 68 0.0023 27.4 6.9 19 128-146 175-193 (366)
42 2asb_A Transcription elongatio 35.6 1.1E+02 0.0038 24.7 6.9 20 127-146 51-70 (251)
43 2cua_A Protein (CUA); CUA cent 34.8 20 0.00067 26.0 2.1 23 119-141 54-76 (135)
44 3go5_A Multidomain protein wit 33.0 1.1E+02 0.0037 24.9 6.6 52 87-147 152-208 (285)
45 3psf_A Transcription elongatio 31.2 10 0.00035 36.8 0.0 19 127-145 949-967 (1030)
46 3ie4_A GRAM-negative binding p 26.9 68 0.0023 22.5 3.8 28 116-143 55-82 (107)
47 4hci_A Cupredoxin 1; structura 24.1 43 0.0015 22.1 2.2 15 126-140 29-43 (100)
48 3aqy_A Beta-1,3-glucan-binding 22.9 92 0.0032 21.7 3.8 28 115-142 55-82 (106)
49 2kha_A Beta-1,3-glucan-binding 21.6 77 0.0026 23.1 3.3 28 115-142 64-91 (130)
50 1iby_A Nitrosocyanin; RED copp 20.6 84 0.0029 21.0 3.2 21 122-142 35-55 (112)
No 1
>3ayh_B DNA-directed RNA polymerase III subunit RPC8; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=100.00 E-value=2.7e-44 Score=290.13 Aligned_cols=160 Identities=11% Similarity=0.178 Sum_probs=146.4
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEecccCCCcceecCCCceEEEEEEeE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPVIFMC 80 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V~F~a 80 (166)
||++++|+|+|+|||++|+++ + .+++.++|+++|+|+ |.+++||||||+|+.++++|+ |.||||+++|+|+|+|
T Consensus 1 MF~l~~l~d~V~i~P~~f~~~--~--~~~i~~~L~~~~egk-v~~~~Gl~I~v~di~~i~~g~-I~~GdG~~~~~V~fk~ 74 (203)
T 3ayh_B 1 MFLLSRFSDIISIHPSNFWKP--T--KEALAEEIHKKYANK-VIQNIGLAICVYDFLKIGEGI-IKYGDGSSYMNVVFRL 74 (203)
T ss_dssp CEEEEEEEEEEEECGGGTTSC--H--HHHHHHHHHHHHTTE-EETTTEEEEEEEEEEEECCCE-ECTTTCCEEEEEEEEE
T ss_pred CeEEEEEEEEEEECHHHcCCh--H--HHHHHHHhhhhhCCE-EeCCccEEEEEEEeeEecccE-EeCCCCCEEEEEEEEE
Confidence 999999999999999999987 4 999999999999999 999999999999999999999 9999999999999999
Q ss_pred EEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEe--------cCCCCeecCCCEEEEEE
Q 042741 81 RTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFS--------NDQQPKIGNGVVVQFLV 139 (166)
Q Consensus 81 lvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~--------~~~~~~i~~g~~VR~RI 139 (166)
++||||+||+++|+ +||+++++||++++++ +.||+++++|+| ++++..++.||.|||||
T Consensus 75 ~~f~p~~GEv~~G~Vs~vt~~GifV~lg~~eglv~~~~l~~d~~~fd~~~~~~v~~~~~~~~~~~~~~~~~~Gd~VrvrV 154 (203)
T 3ayh_B 75 IIFRPFRGEVMLGKIKSCSEEGIRVTISFFDDIFIPKDMLFDPCVFRPDERAWVWKIEGEDGSEGTELYFDIDEEIRFQI 154 (203)
T ss_dssp EEECCCTTCEEEEEEEEEETTEEEEECSSCCCEEEEGGGBCTTEEEEGGGTEEEEEECCCTTSCCEEEECCTTCEEEEEE
T ss_pred EEEccCCCCEEEEEEEEEeccEEEEEEeCceEEEEcHHhCCCCceECccCceEEeecccccccccCCcEEcCCCEEEEEE
Confidence 99999999999999 8999999999999976 679999999999 55667899999999999
Q ss_pred EEEEEcCC-Cc--------------CccccEEEEEEecCCCC
Q 042741 140 TAVRWSGE-GR--------------NLKREYLVFGRAKGESI 166 (166)
Q Consensus 140 ~~~~~~~~-~~--------------~~~~~~~~igti~~d~l 166 (166)
.++++.+. |. +...+|+++|||++|||
T Consensus 155 ~~v~~~~~~p~~~~~~~~~~~~~~~~~~~~~~i~gs~~~~gL 196 (203)
T 3ayh_B 155 ESEDFVDISPKRNKNATAITGTEALESVSPYTLIASCSRDGL 196 (203)
T ss_dssp EEEEECC--------------------CCSEEEEEEBCSTTC
T ss_pred EEEEccccCCCCccccccccccccccCCCCeEEEEEecCCCC
Confidence 99999652 11 01236999999999998
No 2
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=100.00 E-value=6.4e-43 Score=285.41 Aligned_cols=160 Identities=13% Similarity=0.242 Sum_probs=146.1
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEecccCCCcceecCCCceEEEEEEeE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPVIFMC 80 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V~F~a 80 (166)
||++++|+|+|+|||++|+++ + +++|.++|+++|+|+ |.+++||||||+|+.++++|+ |.||||+++|+|+|+|
T Consensus 1 MF~l~~l~d~V~I~P~~f~~~--l--~~~i~~~L~~kyegk-v~~~~Gl~I~v~di~~i~eG~-I~~GdG~~~~~V~fk~ 74 (218)
T 2ckz_B 1 MFILSKIADLVRIPPDQFHRD--T--ISAITHQLNNKFANK-IIPNVGLCITIYDLLTVEEGQ-LKPGDGSSYINVTFRA 74 (218)
T ss_dssp CEEEEEEEEEEEECGGGTTSC--H--HHHHHHHHHHHHTTE-EETTTEEEEEEEEEEEECCCE-ECSSSSCEEEEEEEEE
T ss_pred CeEEEEEEEEEEECHHHcCch--H--HHHHHHHHHHHhcCc-CcCCccEEEEEEEeeeccCcE-EeCCCCCEEEEEEEEE
Confidence 999999999999999999988 4 999999999999999 999999999999999999999 9999999999999999
Q ss_pred EEEeeecCcEEEEE------------e-CCcceEEecCCCCCC-ceeeCCCceeEe---cCCCCeecCCCEEEEEEEEEE
Q 042741 81 RTFLPVKGEILHGV------------C-GPMKYALMSPRRMPT-YRHVSGKKSFFS---NDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 81 lvFrPf~gEVv~G~------------~-Gp~~~ifi~~~~m~~-~~~~~~~~~~~~---~~~~~~i~~g~~VR~RI~~~~ 143 (166)
++||||+||+++|+ + ||+++++|+++++++ +.||+++++|+| ++++.+++.||.|||||++++
T Consensus 75 ~~f~p~vGEv~~G~Is~Vt~fGifVeL~g~~eglv~~s~l~~d~~~fd~~~~~~vg~~~e~t~~~~~~Gd~VrvrV~~v~ 154 (218)
T 2ckz_B 75 VVFKPFLGEIVTGWISKCTAEGIKVSLLGIFDDIFIPQNMLFEGCYYTPEESAWIWPMDEETKLYFDVNEKIRFRIEREV 154 (218)
T ss_dssp EEECCCTTCEEEEEEEEEETTEEEEECTTSCCCEEEETTTSCTTCEEETTTTEEEEECC--CEEEECTTCEEEEEEEEEE
T ss_pred EEecCCCCCEEEEEEEEEccCcEEEEccCccceEEEcHHHCCCCcEEcCcCceEEeeccccCCcEEcCCCEEEEEEEEEE
Confidence 99999999999999 6 999999999999976 679999999999 566789999999999999999
Q ss_pred EcCC-Cc-----C----------------------ccccEEEEEEecCCCC
Q 042741 144 WSGE-GR-----N----------------------LKREYLVFGRAKGESI 166 (166)
Q Consensus 144 ~~~~-~~-----~----------------------~~~~~~~igti~~d~l 166 (166)
+++. |. + ..-+|.++|||++|.|
T Consensus 155 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~i~gs~~~~GL 205 (218)
T 2ckz_B 155 FVDVKPKSPKERELEERAQLENEIEGKNEETPQNEKPPAYALLGSCQTDGM 205 (218)
T ss_dssp ECCCCC-------------------------------CSEEEEEECCSTTC
T ss_pred cccCCCCCccccccccccccccccccccccccccCCCCCeEEEEEecCCCC
Confidence 9764 21 1 1128999999999987
No 3
>4ayb_E DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_E 4b1o_E 4b1p_T 2waq_E 2wb1_E 2pmz_E 3hkz_E
Probab=100.00 E-value=1.2e-41 Score=268.79 Aligned_cols=156 Identities=18% Similarity=0.214 Sum_probs=142.5
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEecccCCCcceecCCCceEEEEEEeE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPVIFMC 80 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V~F~a 80 (166)
||++++++|+|+|||++|+++ + .+++.++|+++++|+ |.+++|+|||++|+.++++|+ |.+|||+++++|+|+|
T Consensus 1 Mf~l~~l~d~V~IpP~~f~~~--~--~~~i~~~L~~k~~~k-v~~~~G~~I~v~di~~~~~g~-I~~gdg~~~~~v~~~~ 74 (180)
T 4ayb_E 1 MYKLIKARSIVRIPPNEFGKP--L--NEIALNELRQQYQEK-ILKDLGLVLAILNVKTSEEGM-LVFGDGATYHEVEFDM 74 (180)
T ss_dssp CEEEEEEEEEEEECGGGTTSC--H--HHHHHHHHHHHTTTC-BCSSSCEEEEEEEEEEEEEEE-ECSSCSSEEEEEEEEE
T ss_pred CeEEEEEEEEEEECHHHhCcc--H--HHHHHHHHHHHhcCe-EcCCCcEEEEeeeEeecCcee-EccCchHHHHHHhhhe
Confidence 999999999999999999988 4 999999999999999 999999999999999999999 9999999999999999
Q ss_pred EEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcCC
Q 042741 81 RTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 81 lvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~~ 147 (166)
++||||+|||++|+ +||+++++|+++++++ +.|+++++.|+|++++..++.||.||+||++++.+..
T Consensus 75 iv~~p~~Gev~~G~V~~v~~~G~fv~l~~~~glvh~s~l~~d~~~~d~~~~~~~g~~~~~~~~~Gd~VrvkV~~v~~~~~ 154 (180)
T 4ayb_E 75 ITYVPVVQEVVEGEVLQVDNYGVFVNLGPMDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVASTVT 154 (180)
T ss_dssp EEECCCTTCEEEEEEEEEETTEEEEECSSSEEEEEGGGSCSSCEEECSSSCCEEETTTCCCCCTTCEEEEEEEEECC---
T ss_pred eeeeccCCCEEEEEEeeeccceEEEEECCccceEEeeecCCCccccchhcceEEEeccCeEECCCCEEEEEEEEEeCCCC
Confidence 99999999999999 8999999999999987 5588888899999888999999999999999987655
Q ss_pred CcCccccEEEEEEecCCCC
Q 042741 148 GRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 148 ~~~~~~~~~~igti~~d~l 166 (166)
.+...+.+|||++||
T Consensus 155 ----~~~~rI~ls~k~~gL 169 (180)
T 4ayb_E 155 ----GRLPRIALTMRQPYL 169 (180)
T ss_dssp --------CEEEECCSTTC
T ss_pred ----cccCcEEEEcCCCCC
Confidence 333578889999997
No 4
>3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=1.5e-40 Score=261.83 Aligned_cols=153 Identities=20% Similarity=0.346 Sum_probs=139.5
Q ss_pred CeEEEEece-eeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEE--EecccCCCcceecCCCceEEEEE
Q 042741 1 MFFEVELLR-DIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVT--KSKSIDKEGPTVNGPGVVSFPVI 77 (166)
Q Consensus 1 MF~l~~l~d-~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~--di~~i~~G~~I~~gdG~~~~~V~ 77 (166)
||++.+++| +|++||++|+++ + .+++..+|+++++|+ |.++.|+||||+ |++++++|+ |.||||+++|+|+
T Consensus 1 Mf~l~~l~d~~i~ipp~~~~~~--~--~~~i~~~l~~~~~g~-vi~~~G~~I~i~~idi~~i~~G~-I~~gdg~~~~~v~ 74 (172)
T 3h0g_G 1 MPFFLKELSLTISLHPSYFGPR--M--QDYLKAKLLADVEGT-CSGQYGYIICVLDSNTIDIDKGR-VVPGQGFAEFEVK 74 (172)
T ss_dssp --CEEEEEEEEEECCGGGCTTT--H--HHHHHHHHHHHHTTC-EETTTEEEEEECTTTSEEECCCE-ECTTTCCEEEEEE
T ss_pred CeEEEEEecCeEEeCHHHhCcc--H--HHHHHHHHHHHhCCc-CcCCccEEEEEEeeeeeEeeCCE-EECCCCcEEEEEE
Confidence 999999999 999999999988 4 999999999999999 999999999999 999999999 9999999999999
Q ss_pred EeEEEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEE
Q 042741 78 FMCRTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 78 F~alvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~ 144 (166)
|+|++|+||+||+++|+ +||++ .|+|.+.|++ +.||++++.|.|++++..++.||.||+||+++++
T Consensus 75 f~~ivf~p~~Gev~~G~V~~v~~fG~FV~l~~~~-glVh~s~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvkV~~vd~ 153 (172)
T 3h0g_G 75 YRAVLWRPFRGEVVDAIVTTVNKMGFFANIGPLN-VFVSSHLVPPDMKFDPTANPPNYSGEDQVIEKGSNVRLKIVGTRT 153 (172)
T ss_dssp EEEEEECCCTTCEEECCCCEEETTEEECCBTTBC-CEEEGGGSCTTCCCBSSSSSCBEESSSCEECSSCCEEEEEEEEEE
T ss_pred EEEeeeccCCCCEEEEEEEEEEcceEEEEeCCeE-EEEEHHHCCCccccCcccccceEecCCcEECCCCEEEEEEEEEEC
Confidence 99999999999999999 89999 6666666764 7799876667667777899999999999999999
Q ss_pred cCCCcCccccEEEEEEecCCCC
Q 042741 145 SGEGRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 145 ~~~~~~~~~~~~~igti~~d~l 166 (166)
+.. + +++||||++|||
T Consensus 154 ~~~----~--~~~Igtm~~~~L 169 (172)
T 3h0g_G 154 DAT----E--IFAIATMKEDYL 169 (172)
T ss_dssp SSS----C--EEEEEECCSTTC
T ss_pred CCC----C--ceEEEEcCCCCC
Confidence 876 4 999999999998
No 5
>2c35_B Human RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: b.40.4.5 d.230.1.1
Probab=100.00 E-value=6.2e-34 Score=223.28 Aligned_cols=153 Identities=20% Similarity=0.350 Sum_probs=139.9
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEecccCCCcceecCCCceEEEEEEeE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPVIFMC 80 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V~F~a 80 (166)
||++.+++++|++||++|+++ + .+++..+|.++++|+ |.++.|+||+++|+.++++|. |.||||++++++.|+|
T Consensus 1 mfil~~m~~~I~~~p~~~~~~--~--~~~i~~~l~~~~~~~-vi~~~G~~I~~~di~~i~~g~-i~~~d~~~~~~~~~~~ 74 (172)
T 2c35_B 1 MFYHISLEHEILLHPRYFGPN--L--LNTVKQKLFTEVEGT-CTGKYGFVIAVTTIDNIGAGV-IQPGRGFVLYPVKYKA 74 (172)
T ss_dssp CEEEEEEEEEEEECGGGCCSC--H--HHHHHHHHHHHHTTC-EETTTEEEEEEEEEEEECCCB-CCTTCSSEEEEEEEEE
T ss_pred CcEEEEEeEEEEECHHHhCCh--H--HHHHHHHHHHHHcCc-CcCCceEEEEEEEeeecCCeE-EeCCCCCEEEEEEEEE
Confidence 999999999999999999987 4 899999999999999 999999999999999999999 9999999999999999
Q ss_pred EEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEec--CCCCeecCCCEEEEEEEEEEEc
Q 042741 81 RTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSN--DQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 81 lvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~--~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
++|+|+.||+++|+ +||++ .++|.+.|++ +.|++.+++|.|. +++..++.||.||+||.++.++
T Consensus 75 ~~~~~~~Gev~~G~V~~v~~fG~fV~l~~~~-glvhis~l~~~~~~d~~~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd~~ 153 (172)
T 2c35_B 75 IVFRPFKGEVVDAVVTQVNKVGLFTEIGPMS-CFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLKIVGTRVD 153 (172)
T ss_dssp EEECCCTTCEEEEEEEEEETTEEEEEETTEE-EEEEGGGSCTTEEEESSSSSCEEEETTSCSEEETTCEEEEEEEEEEEE
T ss_pred EEeeCCCCCEEEEEEEEEeCCEEEEEECCEE-EEEEHHHCCCCcEECCCCCccEEEeCCCCEEECCCCEEEEEEEEEEcC
Confidence 99999999999999 89999 6666667765 6899988766554 5577899999999999999998
Q ss_pred CCCcCccccEEEEEEecCCCC
Q 042741 146 GEGRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 146 ~~~~~~~~~~~~igti~~d~l 166 (166)
.. . +.++|||++|||
T Consensus 154 ~~----~--~~~igsm~~~~L 168 (172)
T 2c35_B 154 KN----D--IFAIGSLMDDYL 168 (172)
T ss_dssp TT----E--EEEEEECCSTTC
T ss_pred CC----C--cEEEEEecCCCC
Confidence 65 3 899999999998
No 6
>1go3_E DNA-directed RNA polymerase subunit E; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: b.40.4.5 d.230.1.1
Probab=100.00 E-value=2.3e-33 Score=222.33 Aligned_cols=157 Identities=20% Similarity=0.308 Sum_probs=139.6
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEecccCCCcceecCCCceEEEEEEeE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPVIFMC 80 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V~F~a 80 (166)
||++++++++|+|||++|++. + .++|.+.|.++++|+ |.+++|+|||++|+.++++|+ |.+|||++++++.|++
T Consensus 1 Mf~~~~l~~~i~I~P~~~~~~--i--~~~I~~~L~~~~~gk-~~~~~G~~i~~idi~~~g~~~-I~~~d~~~~~~~~~~~ 74 (187)
T 1go3_E 1 MYKILEIADVVKVPPEEFGKD--L--KETVKKILMEKYEGR-LDKDVGFVLSIVDVKDIGEGK-VVHGDGSAYHPVVFET 74 (187)
T ss_dssp CEEEEEEEEEEEECGGGTTSC--H--HHHHHHHHHHHHTTC-EETTTEEEEEEEEEEEECCCB-CCTTCCSEEEEEEEEE
T ss_pred CcEEEEEEEEEEECHHHhCcc--H--HHHHHHHHHHHhCCe-EcCCccEEEEEEEEeeccCCE-EeCCCccEEEEEEEEE
Confidence 999999999999999999987 4 788887789999999 999999999999999999999 9999999999999999
Q ss_pred EEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcCC
Q 042741 81 RTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 81 lvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~~ 147 (166)
++|+|+.||+++|+ +||+++++|+++++++ +.|+++++.|.|++.+..++.||.||+||.++..+..
T Consensus 75 i~~~~~~Gev~~G~V~~v~~~G~fV~l~~~eglvhis~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd~~~~ 154 (187)
T 1go3_E 75 LVYIPEMYELIEGEVVDVVEFGSFVRLGPLDGLIHVSQIMDDYVSYDPKREAIIGKETGKVLEIGDYVRARIVAISLKAE 154 (187)
T ss_dssp EEECCCTTCEEEEEEEEEETTEEEEECSSSEEEEEGGGSCSSCEEECCC--CEEETTTCCEECTTCEEEEEEEEEECCC-
T ss_pred EEEccCCCCEEEEEEEEEeCcEEEEEEcCccEEEEhHHhCCCcceECCccceEEecCCCeEEcCCCEEEEEEEEEEcccC
Confidence 99999999999999 8999999999999876 5599999999998777899999999999999998643
Q ss_pred CcCccccEEEEEEecCCCC
Q 042741 148 GRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 148 ~~~~~~~~~~igti~~d~l 166 (166)
. .+..++..||++++|
T Consensus 155 ~---p~~~~I~lS~k~~~L 170 (187)
T 1go3_E 155 R---KRGSKIALTMRQPYL 170 (187)
T ss_dssp -------CEEEEECCSTTC
T ss_pred C---CCccEEEEEEcCCCC
Confidence 0 012578889999987
No 7
>1y14_B B16, RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 PDB: 1nt9_G 1wcm_G 1pqv_G 1y1v_G 1y1w_G 1y1y_G 1y77_G* 2b63_G* 2ja5_G* 2ja6_G* 2ja7_G* 2ja8_G* 2r7z_G 2r92_G 2r93_G 2vum_G* 3fki_G 3h3v_H 3hou_G* 3hov_G* ...
Probab=100.00 E-value=8.5e-34 Score=222.68 Aligned_cols=153 Identities=20% Similarity=0.311 Sum_probs=123.8
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEec--ccCCCcceecCCCceEEEEEE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSK--SIDKEGPTVNGPGVVSFPVIF 78 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~--~i~~G~~I~~gdG~~~~~V~F 78 (166)
||+|.+++++|++||++|+++ + .+++..+|..+++|+ |.++.|+||+++||. ++++|+ |.+|||++++++.|
T Consensus 1 mfil~~m~~~i~~pp~~l~~~--~--p~~i~~~i~~~~i~~-vig~~G~~I~~~di~~~di~~g~-i~~~d~~~~~~~~~ 74 (171)
T 1y14_B 1 MFFIKDLSLNITLHPSFFGPR--M--KQYLKTKLLEEVEGS-CTGKFGYILCVLDYDNIDIQRGR-ILPTDGSAEFNVKY 74 (171)
T ss_dssp CEEEEEEEEECCCCTTSCSTT--H--HHHHHHHHHHHHTTE-EETTTEEEEEECCGGGCBCC-------------CEEEE
T ss_pred CeEEEEEEEEEEECHHHhCCh--H--HHHHHHHHHHHHcCc-CcCCceEEEEEEEecccccCccE-EeCCCCCEEEEEEE
Confidence 999999999999999999987 4 899999999999999 999999999999999 999999 99999999999999
Q ss_pred eEEEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEc
Q 042741 79 MCRTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 79 ~alvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
++++|+|+.||+++|+ +|| .+.|+|.+.|++ +.|++.+++|.|...+..++.||.||+||.++.++
T Consensus 75 ~~~~~~~~~Gev~~G~V~~v~~fG~FV~l~~-~dglvhis~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd~~ 153 (171)
T 1y14_B 75 RAVVFKPFKGEVVDGTVVSCSQHGFEVQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQ 153 (171)
T ss_dssp EEEEECCCTTCEEEEEEEEEETTEEEEEETT-EEEEEEGGGSCTTCEECC-----CEECSSCEECTTCEEEEEEEEEEEE
T ss_pred EEEEccCCCCCEEEEEEEEEecCEEEEEecC-eEEEEEHHHCCCCceECcccCceEEeccceEECCCCEEEEEEEEEEcC
Confidence 9999999999999999 899 557777777765 68999999887753336799999999999999998
Q ss_pred CCCcCccccEEEEEEecCCCC
Q 042741 146 GEGRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 146 ~~~~~~~~~~~~igti~~d~l 166 (166)
.. + +.++|||++|||
T Consensus 154 ~~----~--~~~igsm~~~~L 168 (171)
T 1y14_B 154 VS----S--IHAIGSIKEDYL 168 (171)
T ss_dssp TT----E--EEEEEECCSTTC
T ss_pred CC----C--cEEEEEcCCCCC
Confidence 65 4 999999999998
No 8
>2b8k_G B16, DNA-directed RNA polymerase II 19 kDa polypeptide; DNA-dependent RNA polymerase, cellular RNA polymerase; 4.15A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1
Probab=100.00 E-value=3.6e-33 Score=227.41 Aligned_cols=153 Identities=20% Similarity=0.311 Sum_probs=140.1
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCeeEEEEEEEec--ccCCCcceecCCCceEEEEEE
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDHGYFLSVTKSK--SIDKEGPTVNGPGVVSFPVIF 78 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~GliI~V~di~--~i~~G~~I~~gdG~~~~~V~F 78 (166)
||+|.+|+++|++||++|+++ + .+++..+|..+++|+ |.++.|+|||++||. ++++|+ |.||||++++++.|
T Consensus 1 MfiL~~m~~~I~ipp~~~~~~--~--p~~i~~~I~~~~ig~-vIg~~G~vI~~~dI~~~di~dG~-I~~gdg~~~~~v~~ 74 (215)
T 2b8k_G 1 MFFIKDLSLNITLHPSFFGPR--M--KQYLKTKLLEEVEGS-CTGKFGYILCVLDYDNIDIQRGR-ILPTDGSAEFNVKY 74 (215)
T ss_dssp CEEEECCEEEEEECGGGCSSS--H--HHHHHHHHHHSSTTC-EETTTEEEEEECCSTTCBCCCEE-ECSSSCCEEEEEEC
T ss_pred CEEeHHHHhhhhcCHHHHChh--H--hHHHHhcCCHHHCCe-EcCCCCEEEEEEEeeecccccce-EeCCCHHHHHHHHh
Confidence 999999999999999999987 4 899999999999999 999999999999999 999999 99999999999999
Q ss_pred eEEEEeeecCcEEEEE------------eCCcceEEecCCCCCC-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEc
Q 042741 79 MCRTFLPVKGEILHGV------------CGPMKYALMSPRRMPT-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 79 ~alvFrPf~gEVv~G~------------~Gp~~~ifi~~~~m~~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
++++|+|+.||+++|+ +|| .+.|+|.+.|++ +.|++.+++|.|...+..++.||.||+||.++.++
T Consensus 75 ~~i~~~p~vGev~~G~V~~vt~fG~FVelg~-~dGlVhiS~l~d~~~~d~~~~~w~~~~~~~~~~~Gd~VrVkV~~vd~~ 153 (215)
T 2b8k_G 75 RAVVFKPFKGEVVDGTVVSCSQHGFEVQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQ 153 (215)
T ss_dssp CEEEECCCTTEEEEEEEEEEETTEEEEECTT-SEEEEEGGGSCSSCCCBSSCSSCEEECSSCEEETTCEEEEEEEEEEEE
T ss_pred hhheeccCCCCEEEEEEEEEecceEEEEecC-cEEEEEHHHCCccceeccccccceeeccccEECCCCEEEEEEEEEEcC
Confidence 9999999999999999 899 457777667765 68999999887763337799999999999999998
Q ss_pred CCCcCccccEEEEEEecCCCC
Q 042741 146 GEGRNLKREYLVFGRAKGESI 166 (166)
Q Consensus 146 ~~~~~~~~~~~~igti~~d~l 166 (166)
.. + +.++|||++|||
T Consensus 154 ~~----~--i~~IgSmk~~~L 168 (215)
T 2b8k_G 154 VS----S--IHAIGSIKEDYL 168 (215)
T ss_dssp TT----E--EEEEEECCSTTC
T ss_pred CC----c--cEEEEEcCCCCC
Confidence 65 4 999999999997
No 9
>2rf4_A DNA-directed RNA polymerase I subunit RPA4; transferase DNA/RNA, DNA-binding, phosphorylation, POL I, POLI, rpoli, nuclear protein; 3.10A {Saccharomyces cerevisiae}
Probab=99.97 E-value=2.3e-30 Score=210.47 Aligned_cols=145 Identities=13% Similarity=0.136 Sum_probs=115.2
Q ss_pred CeEEEEeceeeEEcCCCCCCCCCCCchhhHHHHHHhhhhcceecCCe-eEEEEEEEecccCC------------Ccceec
Q 042741 1 MFFEVELLRDIAVPAKSVDRNELRVPQRYTVPRLLEGWINQKACKDH-GYFLSVTKSKSIDK------------EGPTVN 67 (166)
Q Consensus 1 MF~l~~l~d~V~I~P~~fg~~~~l~~~~~i~~~L~~~~~~~k~~~~~-GliI~V~di~~i~~------------G~~I~~ 67 (166)
||++++++++|+|||++|+++ .+.+.++.++.+.++ .+.++ |+|+|++|+..+++ |+ |.+
T Consensus 37 mF~l~~~~~~V~L~P~~f~~~-----~~~i~~~~L~~ll~k-y~~~~~Gv~la~~di~~~~~~~~~~d~~~~~~g~-I~~ 109 (214)
T 2rf4_A 37 CIVRVPIALYVSLAPMYLENP-----LQGVMKQHLNPLVMK-YNNKVGGVVLGYEGLKILDADPLSKEDTSEKLIK-ITP 109 (214)
T ss_dssp CEEEEEEEEEEECCGGGTTCH-----HHHHHHHHHHHHBTS-EETTTTEEEEEEEEEETTSCCC----------------
T ss_pred cEEEEEEEEEEEECHHHhCCh-----hHHHHHHHHHHHHhc-ccCCCCEEEEEEECeEeccCCCcCccccccceeE-EeC
Confidence 999999999999999999987 466666655567888 66665 89999999987775 79 999
Q ss_pred CCCceEEEEEEeEEEEeeecCcEEEEE-------------eCCcceEEecCCCCC-CceeeCCC-----ceeEecCCCCe
Q 042741 68 GPGVVSFPVIFMCRTFLPVKGEILHGV-------------CGPMKYALMSPRRMP-TYRHVSGK-----KSFFSNDQQPK 128 (166)
Q Consensus 68 gdG~~~~~V~F~alvFrPf~gEVv~G~-------------~Gp~~~ifi~~~~m~-~~~~~~~~-----~~~~~~~~~~~ 128 (166)
|+|.++++|+|+|+|||||+||||+|+ +|||+ +|||++.|| ++.|++++ +.|.|.++. .
T Consensus 110 ~~g~~~~~V~~~~iVFrPf~GevL~G~V~~~s~~~Ig~~~~G~Fn-~~Ip~~~ip~~~~f~~~~~~~~~~~wv~~~~~-~ 187 (214)
T 2rf4_A 110 DTPFGFTWCHVNLYVWQPQVGDVLEGYIFIQSASHIGLLIHDAFN-ASIKKNNIPVDWTFVHNDGNRSLGHWVDSNGE-P 187 (214)
T ss_dssp --CCCEEEEEEEEEEECCCTTCEEEEEECCCCSSCEEEEETTTEE-EEECSTTSCSSCBCCCCSCC-CCCCCBCSSCC-B
T ss_pred CCceEEEEEEEEEEEEecCCCCEEEEEEEEECCCcEEEEEeCCEE-EEEcHHHCCCcccccccccccCCCceEcCCCC-C
Confidence 999999999999999999999999999 59999 899999996 58898765 456555432 3
Q ss_pred ecCCCEEEEEEEEEEEcCCCcCccccEEEEEEec
Q 042741 129 IGNGVVVQFLVTAVRWSGEGRNLKREYLVFGRAK 162 (166)
Q Consensus 129 i~~g~~VR~RI~~~~~~~~~~~~~~~~~~igti~ 162 (166)
.|+.|||||.+++.+.. - ..+-|||-
T Consensus 188 --ig~~IRFrV~~~~~~~~----~--lsI~Gsll 213 (214)
T 2rf4_A 188 --IDGKLRFTVRNVHTTGR----V--VSVDGTLI 213 (214)
T ss_dssp --CCSEEEEEEEEEECCSS----S--CEEEEECC
T ss_pred --CCCEEEEEEEEEEecCC----E--EEEEEEec
Confidence 49999999999998654 2 67888874
No 10
>2ja9_A Exosome complex exonuclease RRP40; RNA-binding protein, RNA, S1 domain, KH domain, hydrolase, RNA-binding, nuclear protein; 2.20A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.51.1.1
Probab=94.68 E-value=0.068 Score=41.53 Aligned_cols=52 Identities=17% Similarity=0.286 Sum_probs=36.5
Q ss_pred EeeecCcEEEEE------------eCC--cceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEc
Q 042741 83 FLPVKGEILHGV------------CGP--MKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 83 FrPf~gEVv~G~------------~Gp--~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
|.|-.|++|.|+ +|+ ++++++.+ ..+ ... ++....+++||.|++||.+++-+
T Consensus 3 Y~P~~gDvViG~V~~v~~~~~~VdI~~~~~~a~L~~s-~~~-----g~~-----k~~r~~l~~GDlV~ArV~~~~~~ 68 (175)
T 2ja9_A 3 YIPSVNDFVIGVIIGTFSDSYKVSLQNFSSSVSLSYM-AFP-----NAS-----KKNRPTLQVGDLVYARVCTAEKE 68 (175)
T ss_dssp CCCCTTCEEEEEEEEECSSEEEEESSTTSCCEEEETT-SST-----TCC-----SSSCCCCCTTCEEEEEEEECCTT
T ss_pred ccCCCcCEEEEEEEEEECcEEEEEECCCCccEEEEHH-HCC-----chh-----hhhhccCCCCCEEEEEEEEecCC
Confidence 789999999999 666 66444433 222 111 33456799999999999988754
No 11
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=93.05 E-value=0.03 Score=40.67 Aligned_cols=59 Identities=10% Similarity=-0.031 Sum_probs=38.4
Q ss_pred EEeEEEEeeecCcEEEEE---eCCc-----------ceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEE
Q 042741 77 IFMCRTFLPVKGEILHGV---CGPM-----------KYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAV 142 (166)
Q Consensus 77 ~F~alvFrPf~gEVv~G~---~Gp~-----------~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~ 142 (166)
.|+.+.+.|..|+++.|+ +-++ +++.|.+++.+++ ..+....++.||.|++||+.+
T Consensus 12 ~~~~~~~~~~vG~iv~G~V~~I~~fGaFV~l~g~~~~Glvhisel~~~~----------~~~~~~~~~~Gd~V~VkV~~v 81 (119)
T 2cqo_A 12 RPETMENLPALYTIFQGEVAMVTDYGAFIKIPGCRKQGLVHRTHMSSCR----------VDKPSEIVDVGDKVWVKLIGR 81 (119)
T ss_dssp CCCCSCCSCCTTCEEEEEEEEEETTEEEEECTTCSSCEEEEHHHHCSSC----------CSCHHHHCCTTCEEEEEEEEE
T ss_pred chhhhhcccCCCCEEEEEEEEEeCceEEEEECCCcEEEEEEHHHCCccc----------ccChhhcCCCCCEEEEEEEEE
Confidence 466778899999999999 3333 3333333322221 112234689999999999998
Q ss_pred EEc
Q 042741 143 RWS 145 (166)
Q Consensus 143 ~~~ 145 (166)
...
T Consensus 82 d~~ 84 (119)
T 2cqo_A 82 EMK 84 (119)
T ss_dssp EEC
T ss_pred ecc
Confidence 764
No 12
>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=93.01 E-value=0.14 Score=41.18 Aligned_cols=52 Identities=13% Similarity=0.194 Sum_probs=35.7
Q ss_pred EeeecCcEEEEE------------eC-CcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 83 FLPVKGEILHGV------------CG-PMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 83 FrPf~gEVv~G~------------~G-p~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
|.|-.|++|.|+ +| |++++.+.++.... .+ ..+-...+++||.|++||..+.
T Consensus 53 y~p~~GDiV~G~V~~v~~~~a~V~I~~~~~g~l~isev~~~--------~~-~~~~~~~l~~GD~V~arVi~v~ 117 (229)
T 2ba0_A 53 YTPSVGDVVIGIIREVAANGWAVDIYSPYQAFLPVSENPEM--------KP-NKKPNEVLDIGDAIIAKVLNID 117 (229)
T ss_dssp CCCCTTCEEEEEEEEECSSEEEEECSSSSCEEEEGGGCTTC--------CT-TSCGGGTCCTTCEEEEEEEEEC
T ss_pred ccCCCCCEEEEEEEEEeCCeEEEEeCCCeEEEEEHHHcccc--------cc-ccchhcccCCCCEEEEEEEEEC
Confidence 789999999999 44 66655555444410 00 1223356999999999999885
No 13
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=92.58 E-value=0.44 Score=31.59 Aligned_cols=21 Identities=14% Similarity=0.075 Sum_probs=17.2
Q ss_pred CeecCCCEEEEEEEEEEEcCC
Q 042741 127 PKIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 127 ~~i~~g~~VR~RI~~~~~~~~ 147 (166)
..++.||.|++||.++..+..
T Consensus 44 ~~~~~Gd~V~v~V~~vd~~~~ 64 (80)
T 2k52_A 44 ENLNVGDEIIVQAIDVRPEKR 64 (80)
T ss_dssp GGCCTTCEEEEEEEEEETTTT
T ss_pred eeeCCCCEEEEEEEEEECCCC
Confidence 468999999999999876533
No 14
>2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=92.00 E-value=0.15 Score=35.80 Aligned_cols=53 Identities=15% Similarity=0.093 Sum_probs=34.1
Q ss_pred EEeeecCcEEEEE------------eC----CcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 82 TFLPVKGEILHGV------------CG----PMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 82 vFrPf~gEVv~G~------------~G----p~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
.+.|..|++++|+ ++ ..+++.|.+++.++.. ..+....++.||.|++||..+.
T Consensus 7 ~~~~~vG~i~~G~V~~v~~fG~FV~l~~~~~~~~Glvhisel~~~~~---------~~~~~~~~~~Gd~V~VkV~~vd 75 (103)
T 2eqs_A 7 GEEPTIGDIYNGKVTSIMQFGCFVQLEGLRKRWEGLVHISELRREGR---------VANVADVVSKGQRVKVKVLSFT 75 (103)
T ss_dssp CSSCCTTCEEEEEEEEECSSCEEEEECSSSSCCEEEECGGGTSSSSC---------CCCHHHHCCTTCEEEEEEEEEE
T ss_pred cccCCCCCEEEEEEEEEeccEEEEEEcCCCCCeEEEEEHHHCCCCcc---------cCCcccEeCCCCEEEEEEEEEE
Confidence 3567889999999 33 3454444444433321 1222346899999999999885
No 15
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=91.61 E-value=0.24 Score=35.34 Aligned_cols=62 Identities=15% Similarity=0.102 Sum_probs=37.4
Q ss_pred EEEeEEEEeeecCcEEEEE------------eCC-cceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEE
Q 042741 76 VIFMCRTFLPVKGEILHGV------------CGP-MKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAV 142 (166)
Q Consensus 76 V~F~alvFrPf~gEVv~G~------------~Gp-~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~ 142 (166)
..|..+..+|..|++++|+ +++ .+ .|++.+.|.. + . ...+....++.||.|++||.++
T Consensus 19 ~p~~~~~~~~~~G~~~~G~V~~v~~~G~FV~l~~~~~-Glvhisel~~---~--~---~~~~~~~~~~vGd~V~vkV~~v 89 (115)
T 2khi_A 19 SHWVAIAKRYPEGTKLTGRVTNLTDYGCFVEIEEGVE-GLVHVSEMDW---T--N---KNIHPSKVVNVGDVVEVMVLDI 89 (115)
T ss_dssp --CCCSSCSSCSSCEEEEEEEEEETTEEEEECSTTCE-EEEETTSSSC---S--S---TTCSSTTTCCTTCEEEEEEEEE
T ss_pred CCHHHHhhcCCCCCEEEEEEEEEECCEEEEEECCCCE-EEEEHHHCCc---c--c---cccCcccEECCCCEEEEEEEEE
Confidence 4456666788999999999 322 33 2333222211 0 0 1123345799999999999998
Q ss_pred EEcC
Q 042741 143 RWSG 146 (166)
Q Consensus 143 ~~~~ 146 (166)
....
T Consensus 90 d~~~ 93 (115)
T 2khi_A 90 DEER 93 (115)
T ss_dssp ETTT
T ss_pred ECCC
Confidence 7643
No 16
>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C
Probab=90.87 E-value=0.25 Score=40.33 Aligned_cols=55 Identities=18% Similarity=0.198 Sum_probs=36.3
Q ss_pred EEeeecCcEEEEE------------eC-CcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 82 TFLPVKGEILHGV------------CG-PMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 82 vFrPf~gEVv~G~------------~G-p~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
.|.|-.|++|.|+ +| |++++++.++...... +.+ .+-...+++||.|++||..+.
T Consensus 69 ~y~p~~GDiV~G~V~~v~~~ga~VdI~~~~~GlL~isei~~~~~-~~~------~~~~~~l~vGD~V~arVi~v~ 136 (251)
T 2je6_I 69 FYYPKINDIVIGLVEDVEIYGWVVDIKAPYKAYLPASNLLGRSI-NVG------EDLRRYLDVGDYVIARIENFD 136 (251)
T ss_dssp CCCCCTTCEEEEEEEEECSSEEEEECSSSSCEEEEHHHHHTSCC-CTT------CCCSSSCCTTCEEEEEEEEEE
T ss_pred ccCCCCCCEEEEEEEEEeCceEEEEcCCCeEEEEEHHHhcCCcc-ccc------cchhhcCCCCCEEEEEEEEEC
Confidence 3789999999999 44 5665555554443100 000 122346999999999999986
No 17
>1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=90.70 E-value=0.14 Score=36.74 Aligned_cols=52 Identities=17% Similarity=0.286 Sum_probs=32.1
Q ss_pred eecCcEEEEE------------eC-CcceEEecCCCCCCceeeCCCceeEe-cCCCCeecCCCEEEEEEEEEEEc
Q 042741 85 PVKGEILHGV------------CG-PMKYALMSPRRMPTYRHVSGKKSFFS-NDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 85 Pf~gEVv~G~------------~G-p~~~ifi~~~~m~~~~~~~~~~~~~~-~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
+..|++++|+ +| +-.+.+|+++.+++ |+. ++.+..++.||.|++||..+..+
T Consensus 19 l~~G~i~~G~V~~v~~fG~fV~l~~~~~~~l~~~~~~~~---------~~~~~~~~~~~~~Gd~V~vkV~~vd~~ 84 (119)
T 1wi5_A 19 LKPGMLLTGTVSSLEDHGYLVDIGVDGTRAFLPLLKAQE---------YIRQKNKGAKLKVGQYLNCIVEKVKGN 84 (119)
T ss_dssp CCTTCEEEEEEEEECSSEEEEECCCSSCEEEEEHHHHHH---------HHHHHSSSCCCCTTCEEEEEEEECCTT
T ss_pred CCCCCEEEEEEEEEeCceEEEEECCCCeEEEEEEecccc---------cccccCccCEeCCCCEEEEEEEEEeCC
Confidence 5678999998 33 22334555444321 211 12245799999999999987543
No 18
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1
Probab=90.46 E-value=0.13 Score=41.40 Aligned_cols=55 Identities=18% Similarity=0.265 Sum_probs=36.2
Q ss_pred EeeecCcEEEEE------------eC-CcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 83 FLPVKGEILHGV------------CG-PMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 83 FrPf~gEVv~G~------------~G-p~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
|.|-.|++|.|+ +| +++++.+.++.... ..+ ++ ..+-...+++||.|++||+.+.
T Consensus 62 y~p~~GDiV~G~V~~v~~~~~~V~I~~~~~g~l~isei~~~-~~~----~~-~~~~~~~l~~GD~V~a~Vi~v~ 129 (235)
T 2z0s_A 62 YVPQAGDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDFLGR-PFN----PA-VDDMQSLLKVGDYIKAKVVAFD 129 (235)
T ss_dssp CCCCTTCCEEEEEEEECSSEEEEECSSSSCEEEEHHHHHTS-CCC----TT-TTCCTTSSCTTCEEEEEEEEEC
T ss_pred cCCCCCCEEEEEEEEEeCCeEEEEeCCCeEEEEEHHHhCCC-ccc----cc-hhhHhhcCCCCCEEEEEEEEEC
Confidence 689999999999 44 56655555444431 000 11 1222356999999999999986
No 19
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Probab=89.80 E-value=0.58 Score=37.02 Aligned_cols=60 Identities=13% Similarity=0.051 Sum_probs=32.5
Q ss_pred EeeecCcEEEEE---eCCcceEEecCC-----CC----CCceeeCCCceeEec--CCCCeecCCCEEEEEEEEEE
Q 042741 83 FLPVKGEILHGV---CGPMKYALMSPR-----RM----PTYRHVSGKKSFFSN--DQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 83 FrPf~gEVv~G~---~Gp~~~ifi~~~-----~m----~~~~~~~~~~~~~~~--~~~~~i~~g~~VR~RI~~~~ 143 (166)
|.|-.|+||.|+ +.++. .|+--. .+ +....-.+-.....+ +-...+++||.|++||+++.
T Consensus 77 y~p~vGDvV~G~V~~v~~~~-a~V~I~~v~~~~L~~~~~GlIhisei~~~~~~~~~~~~~l~~GD~V~akVisi~ 150 (209)
T 2nn6_I 77 LLPDVGAIVTCKVSSINSRF-AKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGDIVLAKVISLG 150 (209)
T ss_dssp CCCCTTCEEEEEEEEECSSE-EEEEEEESSSSCCCCSSCSCEEEEGGGTCSSCCCCGGGTCCSSSEEEEEEEEEE
T ss_pred CCCCCCCEEEEEEEEEECce-EEEEECccccccccCCceeEEEHHHcccccccccchhhhcCCCCEEEEEEEEEe
Confidence 689999999999 44544 443311 01 111110000000111 11235899999999999984
No 20
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis}
Probab=88.62 E-value=1.2 Score=32.32 Aligned_cols=51 Identities=18% Similarity=0.070 Sum_probs=33.2
Q ss_pred eeecCcEEEEE------------e-CCcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEE
Q 042741 84 LPVKGEILHGV------------C-GPMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 84 rPf~gEVv~G~------------~-Gp~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~ 144 (166)
.+-.|+++.|+ + +..+++.|.+++.+++. .+-...++.||.|++||..+.-
T Consensus 4 ~~~vG~iv~G~V~~i~~~G~FV~l~~~~~Glihisel~~~~~----------~~~~~~~~vGd~V~vkV~~vd~ 67 (130)
T 2k4k_A 4 KFEVGSVYTGKVTGLQAYGAFVALDEETQGLVHISEVTHGFV----------KDINEHLSVGDEVQVKVLAVDE 67 (130)
T ss_dssp CCCTTCEEEEEEEEEETTEEEEEEETTEEEEEEGGGTSSSCC----------SCGGGTCCTTCEEEEEEEEEET
T ss_pred cCCCCCEEEEEEEEEeCCeEEEEECCCcEEEEEHHHCCcccc----------cCccccCCCCCEEEEEEEEEeC
Confidence 35678888888 2 34555555554444322 1223569999999999999875
No 21
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A
Probab=88.27 E-value=0.091 Score=49.06 Aligned_cols=88 Identities=11% Similarity=-0.036 Sum_probs=0.0
Q ss_pred ecCCeeEEEEEEEecccCCCcceecCCCceEEEE--EEeEEEEeeecCcEEEEE------------eCC-cceEEecCCC
Q 042741 43 ACKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPV--IFMCRTFLPVKGEILHGV------------CGP-MKYALMSPRR 107 (166)
Q Consensus 43 ~~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V--~F~alvFrPf~gEVv~G~------------~Gp-~~~ifi~~~~ 107 (166)
+..+.|.. +||.+-+.-. |...|+....+. .++.++..|..|++++|+ ++| .+++.|.+++
T Consensus 585 I~~~~G~~---IdI~~dg~v~-I~~~~~~~~~~a~~~i~~i~~~~~vG~i~~G~V~~i~~fGaFVel~~g~eGLvHiSel 660 (723)
T 3cdi_A 585 LTEETGTT---IEIEDDGTVK-IAATDGEKAKHAIRRIEEITAEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQI 660 (723)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred eehhhCce---EEecCCccEE-EecCCHHHHHHHHHHHHHHhhhhhcCcEEEEEEEEEecceEEEEeCCCceEEEEHHHc
Confidence 44566744 3666655555 555666665444 578889999999999999 222 4444444444
Q ss_pred CCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEE
Q 042741 108 MPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 108 m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~ 144 (166)
..++ .++.+..++.||.|++||.++.-
T Consensus 661 ~~~~----------v~~~~~~~~vGd~V~VkVi~vd~ 687 (723)
T 3cdi_A 661 ADKR----------VEKVTDYLQMGQEVPVKVLEVDR 687 (723)
T ss_dssp -------------------------------------
T ss_pred CCcc----------ccCcccccCCCCEEEEEEEEECC
Confidence 3221 12334569999999999999864
No 22
>2a19_A EIF-2- alpha, eukaryotic translation initiation factor 2 alpha; transferase, protein biosynthesis, protein synthesis transferase complex; HET: TPO ANP; 2.50A {Saccharomyces cerevisiae} PDB: 2a1a_A* 1q46_A
Probab=88.25 E-value=1.8 Score=33.24 Aligned_cols=52 Identities=13% Similarity=-0.024 Sum_probs=31.4
Q ss_pred eecCcEEEEE------------e---CCcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcC
Q 042741 85 PVKGEILHGV------------C---GPMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 85 Pf~gEVv~G~------------~---Gp~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~ 146 (166)
|-.|+++.|+ + +..+++.|.+++..++ ..+-...++.||.|++||..+.-..
T Consensus 13 p~~G~iv~G~V~~i~~fGaFV~L~e~~gveGLvhiSels~~~----------v~~~~~~~~vGd~V~vkVl~vd~~~ 79 (175)
T 2a19_A 13 PEIDDIVMVNVQQIAEMGAYVKLLEYDNIEGMILLSELSRRR----------IRSIQKLIRVGKNDVAVVLRVDKEK 79 (175)
T ss_dssp CCTTCEEEEEEEEEETTEEEEEETTTTTCEEEEECC------------------CCCCCCCTTSEEEEEEEEEETTT
T ss_pred CCCCCEEEEEEEEEecceEEEEEcCCCCcEEEEEHHHcCCcc----------cCCHHHcCCCCCEEEEEEEEEECCC
Confidence 5579999999 4 3455444444433221 1233457999999999999986543
No 23
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A
Probab=88.01 E-value=0.027 Score=52.69 Aligned_cols=80 Identities=10% Similarity=-0.034 Sum_probs=8.1
Q ss_pred EEecccCCCcceecCCCceEEE--EEEeEEEEeeecCcEEEEE------------e-CCcceEEecCCCCCCceeeCCCc
Q 042741 54 TKSKSIDKEGPTVNGPGVVSFP--VIFMCRTFLPVKGEILHGV------------C-GPMKYALMSPRRMPTYRHVSGKK 118 (166)
Q Consensus 54 ~di~~i~~G~~I~~gdG~~~~~--V~F~alvFrPf~gEVv~G~------------~-Gp~~~ifi~~~~m~~~~~~~~~~ 118 (166)
+||.+-|.-+ |...|+.+... ..++.++..|..|++++|+ + +..+++.|.+++..++
T Consensus 603 idi~ddG~v~-I~~~~~~~~~~A~~~i~~i~~~~~vG~v~~G~V~~I~~fGaFVel~~g~eGLvHiSels~~r------- 674 (726)
T 4aid_A 603 VDINDDGVVK-VSASDGAKIKAAIDWIKSITDEAEVGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNER------- 674 (726)
T ss_dssp ------------CCSCHHHHHHHHHC------------------------------------------------------
T ss_pred eeEECCceEE-EEeCCHHHHHHHHHHHHHHhhhhcCCcEEEEEEEEEeccEEEEEECCCcEEEEEHHHcCccc-------
Confidence 3566666666 77777776655 5688999999999999999 2 2245555555444321
Q ss_pred eeEecCCCCeecCCCEEEEEEEEEEE
Q 042741 119 SFFSNDQQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 119 ~~~~~~~~~~i~~g~~VR~RI~~~~~ 144 (166)
.++-+..++.||.|++||.++.-
T Consensus 675 ---v~~~~d~~kvGD~V~VkVi~iD~ 697 (726)
T 4aid_A 675 ---VAKPSDVLKEGQMVKVKLLGFDD 697 (726)
T ss_dssp --------------------------
T ss_pred ---ccCccccCCCCCEEEEEEEEECC
Confidence 12334569999999999999864
No 24
>1kl9_A Eukaryotic translation initiation factor 2 subuni; OB fold, helical domain; 1.90A {Homo sapiens} SCOP: a.60.14.1 b.40.4.5
Probab=87.73 E-value=1.3 Score=34.26 Aligned_cols=51 Identities=10% Similarity=-0.023 Sum_probs=29.1
Q ss_pred eecCcEEEEE------------e---CCcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEc
Q 042741 85 PVKGEILHGV------------C---GPMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 85 Pf~gEVv~G~------------~---Gp~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
|-.|++++|+ + +..+++.|.+++..++ ..+-...++.||.|+++|..+.-.
T Consensus 13 p~~G~iv~G~V~~I~~fGaFV~L~e~~g~eGLvhiSels~~~----------v~~~~~~~~vGd~V~VkVl~vD~~ 78 (182)
T 1kl9_A 13 PEVEDVVMVNVRSIAEMGAYVSLLEYNNIEGMILLSELSRRR----------IRSINKLIRIGRNECVVVIRVDKE 78 (182)
T ss_dssp CCTTCEEEEEEEEECSSEEEEEETTTTTEEEEEEGGGC----------------------CTTCEEEEEEEEEETT
T ss_pred CCCCCEEEEEEEEEeccEEEEEEccCCCcEEEEEHHHCCCcc----------cCCHHHhcCCCCEEEEEEEEEECC
Confidence 6789999999 3 3455444444433221 122345799999999999998653
No 25
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=87.35 E-value=1.9 Score=30.13 Aligned_cols=62 Identities=21% Similarity=0.147 Sum_probs=33.3
Q ss_pred eeecCcEEEEE---eCCcceEEecCC-CCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcC
Q 042741 84 LPVKGEILHGV---CGPMKYALMSPR-RMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 84 rPf~gEVv~G~---~Gp~~~ifi~~~-~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~ 146 (166)
.+..|+++.|+ +-++- +|+--. ..+....-.+-...+..+....++.||.|++||..+..+.
T Consensus 28 ~~~~G~iv~G~V~~v~~~G-~fV~l~~~~~Gll~~sel~~~~~~~~~~~~~vGd~V~v~V~~vd~~~ 93 (109)
T 2khj_A 28 LNKKGAIVTGKVTAVDAKG-ATVELADGVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDRKN 93 (109)
T ss_dssp TCCSSSEEEEEEEEECSSC-EEEECSTTCBCCBCTTCCCSSSSSSGGGSCCTTCEEEEEEEEEETTT
T ss_pred cCCCCCEEEEEEEEEECCe-EEEEECCCCEEEEEHHHcCcccccChhhccCCCCEEEEEEEEEECCC
Confidence 45679999999 44443 554321 1111111100000011223346999999999999987643
No 26
>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=86.64 E-value=0.26 Score=41.48 Aligned_cols=58 Identities=16% Similarity=0.165 Sum_probs=34.9
Q ss_pred EeeecCcEEEEE------------eC-CcceEEecCCCC-CCceeeCCCceeEec--CCCCeecCCCEEEEEEEEEE
Q 042741 83 FLPVKGEILHGV------------CG-PMKYALMSPRRM-PTYRHVSGKKSFFSN--DQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 83 FrPf~gEVv~G~------------~G-p~~~ifi~~~~m-~~~~~~~~~~~~~~~--~~~~~i~~g~~VR~RI~~~~ 143 (166)
|.|-.|++|.|+ +| |.++..+.++.. +..... +.-..+ +-...+++||.||+||.++.
T Consensus 91 Y~P~vGDvViG~Vt~V~~~~a~VdI~s~~~~~l~iS~v~f~gg~iR---~~~~~D~~~m~~~l~vGDlV~ArVisv~ 164 (308)
T 2nn6_H 91 YIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELR---RRSAEDELAMRGFLQEGDLISAEVQAVF 164 (308)
T ss_dssp CCCCSSBCCCEEEEEEETTEEEEECSSSSCEEEESSCCC----------------CHHHHHHSCSSCEECCEEEEEE
T ss_pred cCCCCCCEEEEEEEEEeCceEEEEECCCcCCceechhhccccceee---cccchhhhhhhccCCCCCEEEEEEEEcC
Confidence 789999999999 55 667555545543 221110 000000 11246999999999999987
No 27
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Probab=85.14 E-value=0.93 Score=34.83 Aligned_cols=15 Identities=13% Similarity=0.120 Sum_probs=13.6
Q ss_pred CeecCCCEEEEEEEE
Q 042741 127 PKIGNGVVVQFLVTA 141 (166)
Q Consensus 127 ~~i~~g~~VR~RI~~ 141 (166)
..++.||.|++||++
T Consensus 110 ~~~~~GD~V~akVi~ 124 (179)
T 3m7n_A 110 EAVGYLDILKARVIG 124 (179)
T ss_dssp GTCCTTCEEEEEEEE
T ss_pred hcCCCCCEEEEEEEC
Confidence 468999999999997
No 28
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide transferase, ATP-GTP diphosphotransferase RNA processing, RNA degradation; 2.5A {Streptomyces antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4 d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Probab=82.23 E-value=0.038 Score=51.86 Aligned_cols=87 Identities=14% Similarity=0.019 Sum_probs=28.7
Q ss_pred cCCeeEEEEEEEecccCCCcceecCCCceEEEE--EEeEEE--EeeecCcEEEEE---eCC----------cceEEecCC
Q 042741 44 CKDHGYFLSVTKSKSIDKEGPTVNGPGVVSFPV--IFMCRT--FLPVKGEILHGV---CGP----------MKYALMSPR 106 (166)
Q Consensus 44 ~~~~GliI~V~di~~i~~G~~I~~gdG~~~~~V--~F~alv--FrPf~gEVv~G~---~Gp----------~~~ifi~~~ 106 (166)
..+.|..| ||.+-+.-. |...++...... ..+.++ ..|..|++++|+ +-+ .+++.|.++
T Consensus 624 ~~~~G~~I---dI~~dG~v~-Is~~~~~~~~~a~~~i~~i~~p~~~~vG~i~~G~V~~i~~fGaFV~l~~g~eGLvHiSe 699 (757)
T 1e3p_A 624 QEDTGAEI---TIEDDGTIY-IGAADGPAAEAARATINGIANPTSPEVGERILGSVVKTTTFGAFVSLLPGKDGLLHISQ 699 (757)
T ss_dssp CCCCCSCC-----------C-CCBSSHHHHCC---------------------CBEEECC-CSCEECCC---CCCCC---
T ss_pred hHhhCCEE---EecCCceEE-EecCCHHHHHHHHHHHHHhcchhhcccccEEEEEEEEccccEEEEEEcCCcEEEEEhHH
Confidence 45778765 454433333 434454443333 456778 899999999999 223 333444444
Q ss_pred C----CCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEE
Q 042741 107 R----MPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 107 ~----m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~ 144 (166)
+ ..+ + .++-...++.||.|++||.++.-
T Consensus 700 l~~~~s~~---------r-v~~~~~~~~vGd~V~VkVi~vd~ 731 (757)
T 1e3p_A 700 IRKLAGGK---------R-VENVEDVLGVGQKVQVEIAEIDS 731 (757)
T ss_dssp --------------------------CCSSCBCCCCCCCCCS
T ss_pred hccccCCC---------c-ccCcccccCCCCEEEEEEEEECC
Confidence 3 111 1 12334568999999999988764
No 29
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Probab=75.77 E-value=8 Score=35.27 Aligned_cols=49 Identities=8% Similarity=-0.028 Sum_probs=34.0
Q ss_pred cceEEecCCCCC--C-ceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcCC
Q 042741 98 MKYALMSPRRMP--T-YRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 98 ~~~ifi~~~~m~--~-~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~~ 147 (166)
.+++.|.+++-+ + +.|++.....+. .++..++.||.|++||..+.....
T Consensus 585 ieGlVhis~l~~~~d~~~~d~~~~~l~~-~~~~~~~lGD~V~VkV~~vd~~~~ 636 (644)
T 2id0_A 585 AIAFIPAPFLHAVRDELVCSQENGTVQI-KGETVYKVTDVIDVTIAEVRMETR 636 (644)
T ss_dssp CEEEEEGGGTCSCGGGEEEETTTTEEEE-TTEEEEETTCEEEEEEEEEETTTT
T ss_pred EEEEEEchhccCcCceeEEcccccEEEe-cCCCEeCCCCEEEEEEEEEeCCCC
Confidence 454444444433 4 568877776655 566789999999999999987644
No 30
>3aev_A Translation initiation factor 2 subunit alpha; proteins-rRNA complex, 16S rRNA, RNA-binding; 2.80A {Pyrococcus horikoshii} PDB: 1yz6_A
Probab=74.82 E-value=7.8 Score=31.79 Aligned_cols=53 Identities=15% Similarity=0.098 Sum_probs=33.8
Q ss_pred eeecCcEEEEE------------eC---CcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcC
Q 042741 84 LPVKGEILHGV------------CG---PMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 84 rPf~gEVv~G~------------~G---p~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~ 146 (166)
.|-.|+++.|+ ++ ..+++.|.+++..+.. .+-...++.||.|++||..+.-..
T Consensus 8 ~p~~Gdiv~G~V~~I~~fGaFV~L~e~~gieGlIhiSels~~~v----------~~~~~~~kvGd~V~vkVi~vD~~~ 75 (275)
T 3aev_A 8 YPEEGEFVVATVKRIHNYGAFLELDEYPGKEAFMHISEVASTWV----------RNIRDYLKEGQKVVAKVIRVDPRK 75 (275)
T ss_dssp CCCTTCEEEEEEEEEETTEEEEEETTSTTCEEEEEGGGSCSSCC----------SCGGGTCCTTCEEEEEEEEEETTT
T ss_pred CCCCCCEEEEEEEEEECcEEEEEECCCCCeEEEEEHHHcCcccc----------cCHHhccCCCCEEEEEEEEEECCC
Confidence 36689999999 32 3454444444332211 122356999999999999987543
No 31
>1q8k_A Eukaryotic translation initiation factor 2 subunit 1; NMR {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 d.58.51.1
Probab=73.96 E-value=10 Score=31.67 Aligned_cols=21 Identities=19% Similarity=-0.086 Sum_probs=17.4
Q ss_pred CCCeecCCCEEEEEEEEEEEc
Q 042741 125 QQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 125 ~~~~i~~g~~VR~RI~~~~~~ 145 (166)
-...+++|+.|++||..+.-.
T Consensus 56 ~~~~~kvGd~V~VkVl~vD~~ 76 (308)
T 1q8k_A 56 INKLIRIGRNECVKVIRVDKE 76 (308)
T ss_dssp CTTTCSSSCEEEEEEEEEETT
T ss_pred HHHhcCCCCEEEEEEEEEeCC
Confidence 345799999999999998754
No 32
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli}
Probab=73.96 E-value=1.1 Score=31.23 Aligned_cols=36 Identities=17% Similarity=0.112 Sum_probs=31.5
Q ss_pred ccCCCcceecCCCceEEEEEEeEEE---E---eeecCcEEEEE
Q 042741 58 SIDKEGPTVNGPGVVSFPVIFMCRT---F---LPVKGEILHGV 94 (166)
Q Consensus 58 ~i~~G~~I~~gdG~~~~~V~F~alv---F---rPf~gEVv~G~ 94 (166)
+.+-|. |.+.+|+...-|.+++|. | +|-.||+++++
T Consensus 27 ~kGfGF-I~~~~gg~dvfvH~s~l~~~~~~~~~l~~Ge~V~g~ 68 (101)
T 2bh8_A 27 DKGFGF-ITPDDGSKDVFVHFSAGSSGAAVRGNPQQGDRVEGK 68 (101)
T ss_dssp GGTEEE-EEESSSSCEEEEECCCSCSSSCCCCCCCTTCEEEEE
T ss_pred CCCCEE-EEeCCCCcEEEEEEEEEecCCccccCCCCCCEEEEE
Confidence 356788 999999999999999998 3 78899999999
No 33
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae}
Probab=71.50 E-value=4.9 Score=38.68 Aligned_cols=47 Identities=9% Similarity=-0.151 Sum_probs=35.1
Q ss_pred cceEEecCCCC--CC-ceeeCCCceeEecC----CCCeecCCCEEEEEEEEEEE
Q 042741 98 MKYALMSPRRM--PT-YRHVSGKKSFFSND----QQPKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 98 ~~~ifi~~~~m--~~-~~~~~~~~~~~~~~----~~~~i~~g~~VR~RI~~~~~ 144 (166)
+++..|.+++. ++ +.|++......+.+ .+..++.||.|++||..+.-
T Consensus 911 iEGlVhis~L~~~~d~y~fde~~~~L~g~~~~g~~~~~~~lGD~V~VkV~~vd~ 964 (977)
T 2wp8_J 911 VEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQVRSVMD 964 (977)
T ss_dssp CEEEEEGGGTCSCGGGCEEETTTTEEEECCTTCCSCEEEETTCEEEEEECCCCC
T ss_pred eEEEEEeccccCCCceeEEcccccEEEeecCCCccCcEEccCCEEEEEEEEEcC
Confidence 45566666665 34 66998887777765 25789999999999998764
No 34
>1luz_A Protein K3, protein K2; stranded anti-parallel beta barrel, viral protein; 1.80A {Vaccinia virus} SCOP: b.40.4.5
Probab=64.90 E-value=4.2 Score=27.47 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=15.2
Q ss_pred eecCCCEEEEEEEEEEEcCC
Q 042741 128 KIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 128 ~i~~g~~VR~RI~~~~~~~~ 147 (166)
.+ .||.|++||.++.....
T Consensus 57 ~~-~Gd~V~VkV~~vd~~~~ 75 (88)
T 1luz_A 57 KL-VGKTVKVKVIRVDYTKG 75 (88)
T ss_dssp HH-TTCEEEEEEEEEETTTT
T ss_pred Ee-CCCEEEEEEEEEECCCC
Confidence 45 99999999999876443
No 35
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16
Probab=57.01 E-value=9.9 Score=35.39 Aligned_cols=48 Identities=8% Similarity=-0.155 Sum_probs=31.4
Q ss_pred cceEEecCCCC--CC-ceeeCCCceeEecCC----CCeecCCCEEEEEEEEEEEc
Q 042741 98 MKYALMSPRRM--PT-YRHVSGKKSFFSNDQ----QPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 98 ~~~ifi~~~~m--~~-~~~~~~~~~~~~~~~----~~~i~~g~~VR~RI~~~~~~ 145 (166)
+++..|.+++- ++ +.|++......+.++ +..++.||.|++||..+..+
T Consensus 694 iEGlVhis~L~~~~d~~~fd~~~~~l~g~~~~~~~~~~~~lGD~V~VkV~~vd~~ 748 (760)
T 2vnu_D 694 VEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQVRSVMDP 748 (760)
T ss_dssp EEEEEEHHHHCSCGGGCEEETTTTEEEECCTTCSSCEEEETTCEEEEEEC-----
T ss_pred cEEEEEeccccCCCceeEEcccccEEEEecCCCccCcEEecCCEEEEEEEEEECc
Confidence 45455555554 34 668888877776653 57899999999999998765
No 36
>3cw2_C Translation initiation factor 2 subunit alpha; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2aho_B 3v11_B*
Probab=56.81 E-value=4 Score=33.28 Aligned_cols=18 Identities=17% Similarity=0.005 Sum_probs=15.3
Q ss_pred CeecCCCEEEEEEEEEEE
Q 042741 127 PKIGNGVVVQFLVTAVRW 144 (166)
Q Consensus 127 ~~i~~g~~VR~RI~~~~~ 144 (166)
..++.|+.|++||+.+.-
T Consensus 56 ~~~~vGd~V~VkVi~vd~ 73 (266)
T 3cw2_C 56 DVLKENRKVIVKVIRVDR 73 (266)
T ss_dssp HHSCTTCEEEEEECCCCS
T ss_pred HhCcCCCEEEEEEEEEeC
Confidence 468999999999998743
No 37
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces cerevisiae}
Probab=54.38 E-value=18 Score=35.64 Aligned_cols=51 Identities=14% Similarity=0.114 Sum_probs=32.4
Q ss_pred eecCcEEEEE------------eC-CcceEEecCCCCCCc-eeeCCCceeEecCCCCeecCCCEEEEEEEEEEEc
Q 042741 85 PVKGEILHGV------------CG-PMKYALMSPRRMPTY-RHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 85 Pf~gEVv~G~------------~G-p~~~ifi~~~~m~~~-~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~ 145 (166)
...|++++|+ ++ -.+|+.|.+++.+++ ..++ ...++.|+.|++||+.+...
T Consensus 900 l~~G~iv~G~V~~V~~fGaFV~L~~gveGLVHiSelsd~~~v~~p----------~~v~kvGd~V~vkVl~VD~~ 964 (1219)
T 3psi_A 900 FFKGSIIPVRVERFWHNDIICTTNSEVECVVNAQRHAGAQLRRPA----------NEIYEIGKTYPAKVIYIDYA 964 (1219)
T ss_dssp SCTTCEEEEEEEEECSSCEEEECTTSCEEEECTTSSSSTTSCSCS----------TTTSCTTCEEEEEEEEEEGG
T ss_pred CCCCCEEEEEEEEEecceEEEEeCCCceEEEEHHHcCCCcccCCH----------HHcCCCCCEEEEEEEEEECC
Confidence 4578888888 22 134444444444433 2222 25689999999999998753
No 38
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=47.44 E-value=23 Score=29.27 Aligned_cols=50 Identities=18% Similarity=0.349 Sum_probs=31.7
Q ss_pred EeeecCcEEEEE-------------eCCcceEEecCCCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 83 FLPVKGEILHGV-------------CGPMKYALMSPRRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 83 FrPf~gEVv~G~-------------~Gp~~~ifi~~~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
|.|-.|.+|.|+ .++++++ ++.+..+ ... ++....+++||.|++||....
T Consensus 123 YiP~vGDiVIG~Vt~v~~~~~~VdI~s~~~a~-L~~~~f~-----Gat-----k~~r~~f~~GDlV~ArV~s~~ 185 (289)
T 2nn6_G 123 YVPVKGDHVIGIVTAKSGDIFKVDVGGSEPAS-LSYLSFE-----GAT-----KRNRPNVQVGDLIYGQFVVAN 185 (289)
T ss_dssp CCCCSSEEEEEEEEEEETTEEEEECSSSSCCC-EESCSSS-----CCS-----SCSSSSSCTTCEEEEEEEECC
T ss_pred CCCCCCCEEEEEEEEEeCcEEEEEECCCceeE-EehhhcC-----cch-----hhhhhhcCCCCEEEEEEEEcC
Confidence 789999999999 2344422 2222121 111 223456999999999998754
No 39
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=46.62 E-value=6.2 Score=37.16 Aligned_cols=20 Identities=20% Similarity=0.202 Sum_probs=16.6
Q ss_pred CCeecCCCEEEEEEEEEEEc
Q 042741 126 QPKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 126 ~~~i~~g~~VR~RI~~~~~~ 145 (166)
...++.||.|++||..+...
T Consensus 696 ~~~~~vGd~V~VkVi~VD~~ 715 (785)
T 3bzc_A 696 YEVVKAGDIVKVKVMEVDIP 715 (785)
T ss_dssp HHHCCTTCCCCCBEEEEETT
T ss_pred hheeCCCCEEEEEEEEEECC
Confidence 35689999999999998754
No 40
>1hh2_P NUSA, N utilization substance protein A; transcription regulation, termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Probab=44.07 E-value=59 Score=27.47 Aligned_cols=19 Identities=21% Similarity=0.261 Sum_probs=16.0
Q ss_pred eecCCCEEEEEEEEEEEcC
Q 042741 128 KIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 128 ~i~~g~~VR~RI~~~~~~~ 146 (166)
.+++||.|++.|..+.-..
T Consensus 171 ~~~vGD~Vkv~V~~V~~~~ 189 (344)
T 1hh2_P 171 EIKAGDLVKVYIIDVVKTT 189 (344)
T ss_dssp CCCTTCEEEEEEEEEEEET
T ss_pred CCCCCCEEEEEEEEEEcCC
Confidence 5889999999999987543
No 41
>1k0r_A NUSA; two component arrangement, S1 domain, two K-homology domains., structural genomics, PSI, protein structure initiative; 1.70A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1
Probab=42.12 E-value=68 Score=27.43 Aligned_cols=19 Identities=16% Similarity=0.197 Sum_probs=16.2
Q ss_pred eecCCCEEEEEEEEEEEcC
Q 042741 128 KIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 128 ~i~~g~~VR~RI~~~~~~~ 146 (166)
.+++||.||+-|..++-..
T Consensus 175 ~~~~GDrVkvyV~~V~~~~ 193 (366)
T 1k0r_A 175 SYEHGNRLRCYVVGVTRGA 193 (366)
T ss_dssp CCCTTCEEEEEEEEEECCS
T ss_pred cCCCCCEEEEEEEEEecCC
Confidence 5889999999999998643
No 42
>2asb_A Transcription elongation protein NUSA; protein-RNA complex, transcription/RNA complex; 1.50A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 PDB: 2atw_A
Probab=35.62 E-value=1.1e+02 Score=24.74 Aligned_cols=20 Identities=15% Similarity=0.179 Sum_probs=16.9
Q ss_pred CeecCCCEEEEEEEEEEEcC
Q 042741 127 PKIGNGVVVQFLVTAVRWSG 146 (166)
Q Consensus 127 ~~i~~g~~VR~RI~~~~~~~ 146 (166)
..+++||.||+-|..++-.+
T Consensus 51 E~~~~GDrIkayV~~V~~~~ 70 (251)
T 2asb_A 51 ESYEHGNRLRCYVVGVTRGA 70 (251)
T ss_dssp CCCCTTCEEEEEEEEEECCS
T ss_pred ccCCCCCEEEEEEEEEEcCC
Confidence 46899999999999998653
No 43
>2cua_A Protein (CUA); CUA center, electron transport; 1.60A {Thermus thermophilus} SCOP: b.6.1.2 PDB: 2fwl_B*
Probab=34.81 E-value=20 Score=26.01 Aligned_cols=23 Identities=17% Similarity=0.296 Sum_probs=19.0
Q ss_pred eeEecCCCCeecCCCEEEEEEEE
Q 042741 119 SFFSNDQQPKIGNGVVVQFLVTA 141 (166)
Q Consensus 119 ~~~~~~~~~~i~~g~~VR~RI~~ 141 (166)
.|.|..+...+..|+.|||++.+
T Consensus 54 ~~~f~P~~l~Vp~G~~V~~~vts 76 (135)
T 2cua_A 54 AFGYQPNPIEVPQGAEIVFKITS 76 (135)
T ss_dssp TTEEESSSEEEETTSEEEEEEEB
T ss_pred eCEEECCEEEEcCCCEEEEEEEe
Confidence 46667667899999999999876
No 44
>3go5_A Multidomain protein with S1 RNA-binding domains; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.40A {Streptococcus pneumoniae}
Probab=32.95 E-value=1.1e+02 Score=24.90 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=31.6
Q ss_pred cCcEEEEE---eCCcceEEe-cC-CCCCCceeeCCCceeEecCCCCeecCCCEEEEEEEEEEEcCC
Q 042741 87 KGEILHGV---CGPMKYALM-SP-RRMPTYRHVSGKKSFFSNDQQPKIGNGVVVQFLVTAVRWSGE 147 (166)
Q Consensus 87 ~gEVv~G~---~Gp~~~ifi-~~-~~m~~~~~~~~~~~~~~~~~~~~i~~g~~VR~RI~~~~~~~~ 147 (166)
.|++++|+ +-++ ++|+ -- ..++...+. ++-...++.||.|.+||..++-...
T Consensus 152 ~G~~V~g~V~~i~~~-G~fV~~i~~g~~Glih~--------SEl~~~l~~Gd~v~~~V~~id~~d~ 208 (285)
T 3go5_A 152 QNQNWPAIVYRLKLS-GTFVYLPENNMLGFIHP--------SERYAEPRLGQVLDARVIGFREVDR 208 (285)
T ss_dssp TTCEEEEEEEEEETT-EEEEEETTTTEEEEECG--------GGCSSCCCTTCEEEEEEEEEETTTT
T ss_pred CCCEEEEEEEEEeCC-cEEEEEeCCCeEEEEEH--------HHccccCCCCCEEEEEEEEEECCCC
Confidence 68889998 5566 4666 32 111222221 1111358999999999999986333
No 45
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces cerevisiae}
Probab=31.23 E-value=10 Score=36.79 Aligned_cols=19 Identities=11% Similarity=0.018 Sum_probs=0.0
Q ss_pred CeecCCCEEEEEEEEEEEc
Q 042741 127 PKIGNGVVVQFLVTAVRWS 145 (166)
Q Consensus 127 ~~i~~g~~VR~RI~~~~~~ 145 (166)
..++.|+.|++||+.+...
T Consensus 949 ~v~kvGd~V~vkVl~VD~~ 967 (1030)
T 3psf_A 949 EIYEIGKTYPAKVIYIDYA 967 (1030)
T ss_dssp -------------------
T ss_pred HcCCCCCEEEEEEEEEECC
Confidence 5689999999999998654
No 46
>3ie4_A GRAM-negative binding protein 3; immunoglobulin fold, immune system; 1.45A {Drosophila melanogaster}
Probab=26.92 E-value=68 Score=22.54 Aligned_cols=28 Identities=7% Similarity=0.119 Sum_probs=22.7
Q ss_pred CCceeEecCCCCeecCCCEEEEEEEEEE
Q 042741 116 GKKSFFSNDQQPKIGNGVVVQFLVTAVR 143 (166)
Q Consensus 116 ~~~~~~~~~~~~~i~~g~~VR~RI~~~~ 143 (166)
..+.|+-.+.+..++.||.|+.++....
T Consensus 55 ~~GrW~~~d~~~~lk~GD~I~Ywv~V~~ 82 (107)
T 3ie4_A 55 KNGRWTFRDRITALKPGDTLYYWTYVIY 82 (107)
T ss_dssp BTTEEEEEESSCCCCTTCEEEEEEEEEE
T ss_pred cCCEEEEECCCceeCCCCEEEEEEEEEE
Confidence 4457877777899999999999988663
No 47
>4hci_A Cupredoxin 1; structural genomics, niaid, national institute of allergy AN infectious diseases; 1.63A {Bacillus anthracis} PDB: 4hcg_A 4hcf_A
Probab=24.06 E-value=43 Score=22.15 Aligned_cols=15 Identities=13% Similarity=0.025 Sum_probs=9.8
Q ss_pred CCeecCCCEEEEEEE
Q 042741 126 QPKIGNGVVVQFLVT 140 (166)
Q Consensus 126 ~~~i~~g~~VR~RI~ 140 (166)
...++.|+.||+.+.
T Consensus 29 ~i~v~~G~tV~~~~~ 43 (100)
T 4hci_A 29 VITIPINESTTLLLK 43 (100)
T ss_dssp EEEECTTSCEEEEEE
T ss_pred EEEECCCCEEEEEEE
Confidence 356777777777654
No 48
>3aqy_A Beta-1,3-glucan-binding protein; beta-sandwich, immune receptor, sugar bindi protein; 1.58A {Plodia interpunctella} PDB: 3aqz_A* 3aqx_A* 2rqe_A
Probab=22.89 E-value=92 Score=21.74 Aligned_cols=28 Identities=14% Similarity=0.194 Sum_probs=22.2
Q ss_pred CCCceeEecCCCCeecCCCEEEEEEEEE
Q 042741 115 SGKKSFFSNDQQPKIGNGVVVQFLVTAV 142 (166)
Q Consensus 115 ~~~~~~~~~~~~~~i~~g~~VR~RI~~~ 142 (166)
...+.|+-.+.+..++.||.|+.++.-.
T Consensus 55 ~~~GrW~~~d~~~~lk~GD~i~Yw~~V~ 82 (106)
T 3aqy_A 55 PKEGRWTFRDRNVKLKLGDKIYFWTYVI 82 (106)
T ss_dssp CBTTEEEEEECSCCCCTTCEEEEEEEEE
T ss_pred ecCCEEEEECCceEeCCCCEEEEEEEEE
Confidence 3445787777778999999999999664
No 49
>2kha_A Beta-1,3-glucan-binding protein; glycoprotein, immune response, innate immunity, secreted, sugar binding protein; NMR {Plodia interpunctella}
Probab=21.62 E-value=77 Score=23.08 Aligned_cols=28 Identities=14% Similarity=0.218 Sum_probs=22.6
Q ss_pred CCCceeEecCCCCeecCCCEEEEEEEEE
Q 042741 115 SGKKSFFSNDQQPKIGNGVVVQFLVTAV 142 (166)
Q Consensus 115 ~~~~~~~~~~~~~~i~~g~~VR~RI~~~ 142 (166)
...+.|.-.+.+..++.||.|+.++.-.
T Consensus 64 ~~~GrW~~~d~~~~Lk~GD~IyYw~~V~ 91 (130)
T 2kha_A 64 PKEGRWTFRDRNAKLKLGDKIYFWTYVI 91 (130)
T ss_dssp CSSSEEEEEETTCCCCTTCEEEEEEEEE
T ss_pred ecCCEEEEECCceeeCCCCEEEEEEEEE
Confidence 3445787777778999999999999875
No 50
>1iby_A Nitrosocyanin; RED copper, cupredoxin, beta hairpin, metal binding protein; 1.65A {Nitrosomonas europaea} SCOP: b.6.1.4 PDB: 1ibz_A 1ic0_A
Probab=20.56 E-value=84 Score=21.01 Aligned_cols=21 Identities=14% Similarity=0.216 Sum_probs=15.1
Q ss_pred ecCCCCeecCCCEEEEEEEEE
Q 042741 122 SNDQQPKIGNGVVVQFLVTAV 142 (166)
Q Consensus 122 ~~~~~~~i~~g~~VR~RI~~~ 142 (166)
+......++.|+.||+++.+.
T Consensus 35 f~p~~i~v~~G~~V~~~~~n~ 55 (112)
T 1iby_A 35 NEPETLVVKKGDAVKVVVENK 55 (112)
T ss_dssp EESCEEEEETTCEEEEEEEEC
T ss_pred EcCCEEEEeCCCEEEEEEEEC
Confidence 344457788999999887753
Done!