Query psy11391
Match_columns 112
No_of_seqs 105 out of 193
Neff 5.2
Searched_HMMs 29240
Date Fri Aug 16 17:13:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11391.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11391hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ckz_B C25, DNA-directed RNA p 99.9 6E-23 2.1E-27 157.5 7.6 99 2-107 99-210 (218)
2 3ayh_B DNA-directed RNA polyme 99.9 3.3E-22 1.1E-26 151.2 6.7 101 2-107 99-201 (203)
3 4ayb_E DNA-directed RNA polyme 99.3 1.4E-12 4.9E-17 95.6 3.6 77 2-108 99-175 (180)
4 2c35_B Human RPB7, DNA-directe 99.2 4.4E-12 1.5E-16 92.6 4.5 74 2-106 99-172 (172)
5 1y14_B B16, RPB7, DNA-directed 99.1 5.5E-11 1.9E-15 86.9 5.6 71 2-105 101-171 (171)
6 3h0g_G DNA-directed RNA polyme 99.1 9.8E-11 3.4E-15 86.0 5.4 71 2-105 102-172 (172)
7 2b8k_G B16, DNA-directed RNA p 99.0 6E-10 2.1E-14 85.1 6.1 72 2-106 101-172 (215)
8 1go3_E DNA-directed RNA polyme 98.9 6.2E-10 2.1E-14 81.8 4.8 78 2-108 99-176 (187)
9 2rf4_A DNA-directed RNA polyme 98.6 1.8E-08 6.3E-13 76.5 4.4 47 3-59 149-200 (214)
10 1cyx_A CYOA; electron transpor 77.2 1.3 4.3E-05 33.5 2.3 30 29-58 25-58 (205)
11 3hb3_B Cytochrome C oxidase su 74.1 1.6 5.6E-05 34.4 2.3 18 41-58 189-206 (298)
12 1fft_B Ubiquinol oxidase; elec 72.5 1.3 4.5E-05 35.2 1.4 32 28-59 134-169 (315)
13 1v54_B Cytochrome C oxidase po 69.5 2.3 7.8E-05 32.1 2.1 18 41-58 140-157 (227)
14 2yev_B Cytochrome C oxidase su 70.2 1.2 4E-05 35.2 0.0 32 28-59 124-159 (337)
15 2gsm_B Cytochrome C oxidase su 60.6 4.7 0.00016 31.0 2.4 18 41-58 171-188 (262)
16 2cua_A Protein (CUA); CUA cent 51.8 15 0.00051 25.2 3.6 24 29-58 54-77 (135)
17 2nn6_I 3'-5' exoribonuclease C 50.8 15 0.00051 27.1 3.7 16 44-59 135-150 (209)
18 2wtp_A ORF131 protein, CZCE; m 50.6 10 0.00034 26.8 2.5 20 43-62 73-92 (131)
19 2ba0_A Archeal exosome RNA bin 38.4 33 0.0011 25.5 3.9 17 43-59 101-117 (229)
20 3s8f_B Cytochrome C oxidase su 36.0 17 0.00057 26.2 1.8 24 29-58 87-110 (168)
21 2z0s_A Probable exosome comple 31.5 46 0.0016 24.6 3.7 16 44-59 114-129 (235)
22 2je6_I RRP4, exosome complex R 29.3 65 0.0022 24.2 4.3 16 44-59 121-136 (251)
23 2k52_A Uncharacterized protein 28.7 38 0.0013 20.5 2.4 16 44-59 45-60 (80)
24 1iby_A Nitrosocyanin; RED copp 28.2 62 0.0021 20.4 3.5 19 41-59 38-56 (112)
25 3dwa_A SUBB, subtilase cytotox 26.7 7.8 0.00027 27.3 -1.2 23 41-63 64-86 (126)
26 2p9r_A Alpha-2-M, alpha-2-macr 26.2 37 0.0013 21.3 2.0 18 42-59 10-27 (102)
27 2ja9_A Exosome complex exonucl 22.9 74 0.0025 22.8 3.4 19 41-59 48-66 (175)
28 2khj_A 30S ribosomal protein S 21.2 62 0.0021 20.7 2.5 17 43-59 74-90 (109)
29 1wi5_A RRP5 protein homolog; S 21.1 50 0.0017 21.6 2.0 16 44-59 67-82 (119)
No 1
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=99.88 E-value=6e-23 Score=157.49 Aligned_cols=99 Identities=26% Similarity=0.534 Sum_probs=74.8
Q ss_pred eee-cCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCC-----
Q psy11391 2 VTL-GFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGA----- 75 (112)
Q Consensus 2 vsl-gFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~----- 75 (112)
|+| |||+++++|.++++++..||++++.|+|.++. .+..+|++|++|||||.++.|.+..|..++.++..+
T Consensus 99 VeL~g~~eglv~~s~l~~d~~~fd~~~~~~vg~~~e---~t~~~~~~Gd~VrvrV~~v~~~~~~p~~~~~~~~~~~~~~~ 175 (218)
T 2ckz_B 99 VSLLGIFDDIFIPQNMLFEGCYYTPEESAWIWPMDE---ETKLYFDVNEKIRFRIEREVFVDVKPKSPKERELEERAQLE 175 (218)
T ss_dssp EECTTSCCCEEEETTTSCTTCEEETTTTEEEEECC-----CEEEECTTCEEEEEEEEEEECCCCC---------------
T ss_pred EEccCccceEEEcHHHCCCCcEEcCcCceEEeeccc---cCCcEEcCCCEEEEEEEEEEcccCCCCCccccccccccccc
Confidence 678 99999999999999999999999999999841 257999999999999999999999998776433210
Q ss_pred -------CCCCCCCCCCCeEEEeccceeeeCCCCceeee
Q psy11391 76 -------PGSEVDTPKIPYSYGYYSLAVLRTQLLSPVRF 107 (112)
Q Consensus 76 -------~~~~~~~~~~Py~I~~~~~gs~~~~GLGpv~W 107 (112)
+.++..+++|||+|+ |||+++|||+++|
T Consensus 176 ~~~~~~~~~~~~~~~~~p~~i~----gs~~~~GLG~~~w 210 (218)
T 2ckz_B 176 NEIEGKNEETPQNEKPPAYALL----GSCQTDGMGLVSW 210 (218)
T ss_dssp ----------------CSEEEE----EECCSTTCEEGGG
T ss_pred cccccccccccccCCCCCeEEE----EEecCCCCchhhh
Confidence 002245678999999 9999999999998
No 2
>3ayh_B DNA-directed RNA polymerase III subunit RPC8; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=99.86 E-value=3.3e-22 Score=151.16 Aligned_cols=101 Identities=30% Similarity=0.552 Sum_probs=75.1
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCC--CceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEG--DKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSE 79 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed--~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~ 79 (112)
|+||||+++++|.+++++++.||++++.|+|.|..++ +.++.+|++|++|||||.++.|.+..|..++.++..+. ..
T Consensus 99 V~lg~~eglv~~~~l~~d~~~fd~~~~~~v~~~~~~~~~~~~~~~~~~Gd~VrvrV~~v~~~~~~p~~~~~~~~~~~-~~ 177 (203)
T 3ayh_B 99 VTISFFDDIFIPKDMLFDPCVFRPDERAWVWKIEGEDGSEGTELYFDIDEEIRFQIESEDFVDISPKRNKNATAITG-TE 177 (203)
T ss_dssp EECSSCCCEEEEGGGBCTTEEEEGGGTEEEEEECCCTTSCCEEEECCTTCEEEEEEEEEEECC-----------------
T ss_pred EEEeCceEEEEcHHhCCCCceECccCceEEeecccccccccCCcEEcCCCEEEEEEEEEEccccCCCCccccccccc-cc
Confidence 6789999999999999999999999999999985442 34689999999999999999999999987764432110 01
Q ss_pred CCCCCCCeEEEeccceeeeCCCCceeee
Q psy11391 80 VDTPKIPYSYGYYSLAVLRTQLLSPVRF 107 (112)
Q Consensus 80 ~~~~~~Py~I~~~~~gs~~~~GLGpv~W 107 (112)
..+.++||.|+ |||+++|||+++|
T Consensus 178 ~~~~~~~~~i~----gs~~~~gLG~~~W 201 (203)
T 3ayh_B 178 ALESVSPYTLI----ASCSRDGLGIPAW 201 (203)
T ss_dssp ----CCSEEEE----EEBCSTTCBCGGG
T ss_pred cccCCCCeEEE----EEecCCCCceeee
Confidence 33457899999 9999999999999
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=99.28 E-value=1.4e-12 Score=95.64 Aligned_cols=77 Identities=19% Similarity=0.223 Sum_probs=63.6
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|++|++|.+..+.++++++..||++.+.|+|+.. +.+|+.|++|||||.++.....
T Consensus 99 v~l~~~~glvh~s~l~~d~~~~d~~~~~~~g~~~------~~~~~~Gd~VrvkV~~v~~~~~------------------ 154 (180)
T 4ayb_E 99 VNLGPMDGLVHISQITDDTLKYDNVRGIIFGEKS------KKVIQKGDKVRARVISVASTVT------------------ 154 (180)
T ss_dssp EECSSSEEEEEGGGSCSSCEEECSSSCCEEETTT------CCCCCTTCEEEEEEEEECC---------------------
T ss_pred EEECCccceEEeeecCCCccccchhcceEEEecc------CeEECCCCEEEEEEEEEeCCCC------------------
Confidence 6789999999999999999999999999999864 4789999999999999862111
Q ss_pred CCCCCeEEEeccceeeeCCCCceeeee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPVRFQ 108 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv~W~ 108 (112)
..-.+|. +||+++|||+++|-
T Consensus 155 --~~~~rI~----ls~k~~gLG~~~W~ 175 (180)
T 4ayb_E 155 --GRLPRIA----LTMRQPYLGKLEWI 175 (180)
T ss_dssp ------CEE----EECCSTTCEEHHHH
T ss_pred --cccCcEE----EEcCCCCCCCChhH
Confidence 0124689 99999999999994
No 4
>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=99.24 E-value=4.4e-12 Score=92.57 Aligned_cols=74 Identities=14% Similarity=0.216 Sum_probs=64.1
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|.||+++ .+||.+.|+++..||+.++.|.|..+. ++.+++.|+.|||||.++.+..
T Consensus 99 V~l~~~~-glvhis~l~~~~~~d~~~~~~~~~~~~----~~~~~~~Gd~V~vkV~~vd~~~------------------- 154 (172)
T 2c35_B 99 TEIGPMS-CFISRHSIPSEMEFDPNSNPPCYKTMD----EDIVIQQDDEIRLKIVGTRVDK------------------- 154 (172)
T ss_dssp EEETTEE-EEEEGGGSCTTEEEESSSSSCEEEETT----SCSEEETTCEEEEEEEEEEEET-------------------
T ss_pred EEECCEE-EEEEHHHCCCCcEECCCCCccEEEeCC----CCEEECCCCEEEEEEEEEEcCC-------------------
Confidence 6789888 999999999888999999999999853 4678999999999999999531
Q ss_pred CCCCCeEEEeccceeeeCCCCceee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPVR 106 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv~ 106 (112)
.+|.++ |||+++|||+++
T Consensus 155 ---~~~~~i----gsm~~~~LG~~~ 172 (172)
T 2c35_B 155 ---NDIFAI----GSLMDDYLGLVS 172 (172)
T ss_dssp ---TEEEEE----EECCSTTCEEC-
T ss_pred ---CCcEEE----EEecCCCCCCCC
Confidence 269999 999999999975
No 5
>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=99.13 E-value=5.5e-11 Score=86.90 Aligned_cols=71 Identities=10% Similarity=0.186 Sum_probs=57.1
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|.||+ .|.+|+.+.|+++..||+.++.|.|..+. +. +..|++||+||.++.+..
T Consensus 101 V~l~~-~dglvhis~l~~~~~~d~~~~~~~~~~~~-----~~-~~~Gd~V~vkV~~vd~~~------------------- 154 (171)
T 1y14_B 101 VQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSE-----DV-ITIKSRIRVKIEGCISQV------------------- 154 (171)
T ss_dssp EEETT-EEEEEEGGGSCTTCEECC-----CEECSS-----CE-ECTTCEEEEEEEEEEEET-------------------
T ss_pred EEecC-eEEEEEHHHCCCCceECcccCceEEeccc-----eE-ECCCCEEEEEEEEEEcCC-------------------
Confidence 56787 89999999999999999999999999852 44 899999999999999531
Q ss_pred CCCCCeEEEeccceeeeCCCCcee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPV 105 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv 105 (112)
.+|.++ |||+++|||++
T Consensus 155 ---~~~~~i----gsm~~~~LG~~ 171 (171)
T 1y14_B 155 ---SSIHAI----GSIKEDYLGAI 171 (171)
T ss_dssp ---TEEEEE----EECCSTTCEEC
T ss_pred ---CCcEEE----EEcCCCCCCCC
Confidence 269999 99999999985
No 6
>3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=99.09 E-value=9.8e-11 Score=85.96 Aligned_cols=71 Identities=10% Similarity=0.216 Sum_probs=59.8
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|.||+++ ++||.+.|+++..||++++.|.|+- ++.+++.|++|||||.++.+..
T Consensus 102 V~l~~~~-glVh~s~l~~~~~~d~~~~~~~~~~------~~~~~~~Gd~VrvkV~~vd~~~------------------- 155 (172)
T 3h0g_G 102 ANIGPLN-VFVSSHLVPPDMKFDPTANPPNYSG------EDQVIEKGSNVRLKIVGTRTDA------------------- 155 (172)
T ss_dssp CCBTTBC-CEEEGGGSCTTCCCBSSSSSCBEES------SSCEECSSCCEEEEEEEEEESS-------------------
T ss_pred EEeCCeE-EEEEHHHCCCccccCcccccceEec------CCcEECCCCEEEEEEEEEECCC-------------------
Confidence 5688888 9999999999999999988899933 3578999999999999998321
Q ss_pred CCCCCeEEEeccceeeeCCCCcee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPV 105 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv 105 (112)
..+..+ |||+++|||++
T Consensus 156 ---~~~~~I----gtm~~~~LG~~ 172 (172)
T 3h0g_G 156 ---TEIFAI----ATMKEDYLGVL 172 (172)
T ss_dssp ---SCEEEE----EECCSTTCEEC
T ss_pred ---CCceEE----EEcCCCCCCCC
Confidence 136788 99999999985
No 7
>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=98.98 E-value=6e-10 Score=85.08 Aligned_cols=72 Identities=10% Similarity=0.182 Sum_probs=62.2
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|.||+ .|.+||.+.|+++..||+.++.|.|..+. +. +..|++|||||.++.+..
T Consensus 101 Velg~-~dGlVhiS~l~d~~~~d~~~~~w~~~~~~-----~~-~~~Gd~VrVkV~~vd~~~------------------- 154 (215)
T 2b8k_G 101 VQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSE-----DV-ITIKSRIRVKIEGCISQV------------------- 154 (215)
T ss_dssp EECTT-SEEEEEGGGSCSSCCCBSSCSSCEEECSS-----CE-EETTCEEEEEEEEEEEET-------------------
T ss_pred EEecC-cEEEEEHHHCCccceeccccccceeeccc-----cE-ECCCCEEEEEEEEEEcCC-------------------
Confidence 67787 89999999999999999999999999852 44 899999999999998531
Q ss_pred CCCCCeEEEeccceeeeCCCCceee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPVR 106 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv~ 106 (112)
.++.++ |||+++|||+++
T Consensus 155 ---~~i~~I----gSmk~~~LG~~~ 172 (215)
T 2b8k_G 155 ---SSIHAI----GSIKEDYLGAIS 172 (215)
T ss_dssp ---TEEEEE----EECCSTTCEEC-
T ss_pred ---CccEEE----EEcCCCCCCCcc
Confidence 258999 999999999985
No 8
>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=98.95 E-value=6.2e-10 Score=81.83 Aligned_cols=78 Identities=13% Similarity=0.216 Sum_probs=60.5
Q ss_pred eeecCcceeeeCCCCCCCCCCCCcccceEEEeccCCCCceeeeeCCCCeEEEEEceEEeeecCCCCCCCcCCCCCCCCCC
Q psy11391 2 VTLGFFEDILIPPEGLQQPSRFDEKEQVWVWEFDNEGDKHDLFMDPGDKIKFRVTSELFTETSPISCPDIHDGAPGSEVD 81 (112)
Q Consensus 2 vslgFFdDI~IP~~~L~~ps~fd~~e~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~F~d~~P~~p~~~e~~~~~~~~~ 81 (112)
|+|++++.+..+.++++++..||++++.|+|+- ...+++.|+.||+||.++.+.+..|
T Consensus 99 V~l~~~eglvhis~l~~~~~~~d~~~~~~~~~~------~~~~~~~Gd~V~vkV~~vd~~~~~p---------------- 156 (187)
T 1go3_E 99 VRLGPLDGLIHVSQIMDDYVSYDPKREAIIGKE------TGKVLEIGDYVRARIVAISLKAERK---------------- 156 (187)
T ss_dssp EECSSSEEEEEGGGSCSSCEEECCC--CEEETT------TCCEECTTCEEEEEEEEEECCC-------------------
T ss_pred EEEcCccEEEEhHHhCCCcceECCccceEEecC------CCeEEcCCCEEEEEEEEEEcccCCC----------------
Confidence 678888777667778888999999999999953 2478999999999999998433211
Q ss_pred CCCCCeEEEeccceeeeCCCCceeeee
Q psy11391 82 TPKIPYSYGYYSLAVLRTQLLSPVRFQ 108 (112)
Q Consensus 82 ~~~~Py~I~~~~~gs~~~~GLGpv~W~ 108 (112)
.+++|. +|+.++|||++.|-
T Consensus 157 ---~~~~I~----lS~k~~~LG~~~w~ 176 (187)
T 1go3_E 157 ---RGSKIA----LTMRQPYLGKLEWI 176 (187)
T ss_dssp -----CEEE----EECCSTTCEEHHHH
T ss_pred ---CccEEE----EEEcCCCCCcHHHH
Confidence 168999 99999999999993
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=98.65 E-value=1.8e-08 Score=76.48 Aligned_cols=47 Identities=17% Similarity=0.208 Sum_probs=39.4
Q ss_pred eecCcceeeeCCCCCCCCCCCCccc-----ceEEEeccCCCCceeeeeCCCCeEEEEEceEE
Q psy11391 3 TLGFFEDILIPPEGLQQPSRFDEKE-----QVWVWEFDNEGDKHDLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 3 slgFFdDI~IP~~~L~~ps~fd~~e-----~~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~~ 59 (112)
.+|||+ ++||++.||++..||+++ +.|+|.-+ ++ +|++|||||.++.
T Consensus 149 ~~G~Fn-~~Ip~~~ip~~~~f~~~~~~~~~~~wv~~~~-----~~----ig~~IRFrV~~~~ 200 (214)
T 2rf4_A 149 IHDAFN-ASIKKNNIPVDWTFVHNDGNRSLGHWVDSNG-----EP----IDGKLRFTVRNVH 200 (214)
T ss_dssp ETTTEE-EEECSTTSCSSCBCCCCSCC-CCCCCBCSSC-----CB----CCSEEEEEEEEEE
T ss_pred EeCCEE-EEEcHHHCCCcccccccccccCCCceEcCCC-----CC----CCCEEEEEEEEEE
Confidence 469999 799999999999999987 57777521 33 4999999999998
No 10
>1cyx_A CYOA; electron transport; 2.30A {Escherichia coli} SCOP: b.6.1.2 PDB: 1cyw_A
Probab=77.21 E-value=1.3 Score=33.49 Aligned_cols=30 Identities=23% Similarity=0.498 Sum_probs=23.8
Q ss_pred eEEEeccCCCC----ceeeeeCCCCeEEEEEceE
Q psy11391 29 VWVWEFDNEGD----KHDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 29 ~W~W~~~~ed~----~~~l~~d~ge~IRFRV~~~ 58 (112)
.|.|.|+..|. .++|.+-.|..|||+|.+.
T Consensus 25 QW~W~f~Ypd~~i~~~n~l~lP~g~~V~~~lTS~ 58 (205)
T 1cyx_A 25 DWKWFFIYPEQGIATVNEIAFPANTPVYFKVTSN 58 (205)
T ss_dssp TTEEEEEETTTTEEEESEEEEETTSCEEEEEEES
T ss_pred EeEEEEEeCCCCccccceEEEeCCCEEEEEEecC
Confidence 59998764332 2689999999999999985
No 11
>3hb3_B Cytochrome C oxidase subunit 2; electron transfer, proton transfer, proton pumping, membrane protein, cell inner membrane, cell membrane, copper; HET: HEA LDA LMT; 2.25A {Paracoccus denitrificans} PDB: 1ar1_B* 3ehb_B* 1qle_B*
Probab=74.07 E-value=1.6 Score=34.43 Aligned_cols=18 Identities=22% Similarity=0.396 Sum_probs=15.9
Q ss_pred eeeeeCCCCeEEEEEceE
Q psy11391 41 HDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~ 58 (112)
++|.+-.|..|||+|.+.
T Consensus 189 N~lvlP~g~~V~~~ltS~ 206 (298)
T 3hb3_B 189 NPVVVPVGKKVLVQVTAT 206 (298)
T ss_dssp SCEEEESSSEEEEEEEES
T ss_pred ceEEEEcCCEEEEEEEeC
Confidence 578889999999999983
No 12
>1fft_B Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane protein, oxidoreductase; HET: HEM HEO; 3.50A {Escherichia coli} SCOP: b.6.1.2 f.17.2.1
Probab=72.52 E-value=1.3 Score=35.22 Aligned_cols=32 Identities=22% Similarity=0.434 Sum_probs=25.2
Q ss_pred ceEEEeccCCCC----ceeeeeCCCCeEEEEEceEE
Q psy11391 28 QVWVWEFDNEGD----KHDLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 28 ~~W~W~~~~ed~----~~~l~~d~ge~IRFRV~~~~ 59 (112)
+.|.|.|+..|. .++|.+-.|..|||+|.+..
T Consensus 134 ~QW~W~f~Ypd~~i~t~n~l~lP~g~~V~~~lTS~D 169 (315)
T 1fft_B 134 MDWKWFFIYPEQGIATVNEIAFPANTPVYFKVTSNS 169 (315)
T ss_dssp CTTSCEEECTTTCCEEESBCCCCSSSEEEEEECBSS
T ss_pred eeccEEEecCCCcccccceEEEeCCCEEEEEEEeCC
Confidence 359998765443 26899999999999999853
No 13
>1v54_B Cytochrome C oxidase polypeptide II; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: b.6.1.2 f.17.2.1 PDB: 1oco_B* 1occ_B* 1ocz_B* 1ocr_B* 1v55_B* 2dyr_B* 2dys_B* 2eij_B* 2eik_B* 2eil_B* 2eim_B* 2ein_B* 2occ_B* 2y69_B* 2ybb_M* 2zxw_B* 3abk_B* 3abl_B* 3abm_B* 3ag1_B* ...
Probab=69.52 E-value=2.3 Score=32.10 Aligned_cols=18 Identities=22% Similarity=0.290 Sum_probs=15.9
Q ss_pred eeeeeCCCCeEEEEEceE
Q psy11391 41 HDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~ 58 (112)
++|.+-.|..|||+|.+.
T Consensus 140 n~lvlP~~~~Vr~~vtS~ 157 (227)
T 1v54_B 140 NRVVLPMEMTIRMLVSSE 157 (227)
T ss_dssp SCEEEETTSCEEEEEEES
T ss_pred ceEEEecCCEEEEEEEeC
Confidence 578889999999999984
No 14
>2yev_B Cytochrome C oxidase subunit 2; electron transport; HET: FME 5PL HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus thermophilus}
Probab=70.20 E-value=1.2 Score=35.20 Aligned_cols=32 Identities=19% Similarity=0.425 Sum_probs=25.4
Q ss_pred ceEEEeccCCCC----ceeeeeCCCCeEEEEEceEE
Q psy11391 28 QVWVWEFDNEGD----KHDLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 28 ~~W~W~~~~ed~----~~~l~~d~ge~IRFRV~~~~ 59 (112)
..|.|.|+..|. .++|.+-.|..|||+|.+..
T Consensus 124 ~qw~W~~~y~~~~~~~~n~l~~P~~~~v~~~~ts~D 159 (337)
T 2yev_B 124 YQFWWDFHYPELGLRNSNELVLPAGVPVELEITSKD 159 (337)
Confidence 369998875443 37899999999999999854
No 15
>2gsm_B Cytochrome C oxidase subunit 2; transmembrane protein complex, oxidoreductase; HET: DMU HEA TRD; 2.00A {Rhodobacter sphaeroides} SCOP: b.6.1.2 f.17.2.1 PDB: 3dtu_B* 3fye_B* 3fyi_B* 3omi_B* 3om3_B* 3oma_B* 3omn_B* 1m56_B* 1m57_B*
Probab=60.58 E-value=4.7 Score=31.00 Aligned_cols=18 Identities=11% Similarity=0.219 Sum_probs=15.9
Q ss_pred eeeeeCCCCeEEEEEceE
Q psy11391 41 HDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~ 58 (112)
++|.+-.|..|||+|.+.
T Consensus 171 n~l~lP~g~~v~~~~tS~ 188 (262)
T 2gsm_B 171 TAMVVPVNKTVVVQVTGA 188 (262)
T ss_dssp SCEEEETTSEEEEEEEES
T ss_pred ceEEEecCCEEEEEEEEC
Confidence 478899999999999975
No 16
>2cua_A Protein (CUA); CUA center, electron transport; 1.60A {Thermus thermophilus} SCOP: b.6.1.2 PDB: 2fwl_B*
Probab=51.82 E-value=15 Score=25.15 Aligned_cols=24 Identities=21% Similarity=0.422 Sum_probs=20.2
Q ss_pred eEEEeccCCCCceeeeeCCCCeEEEEEceE
Q psy11391 29 VWVWEFDNEGDKHDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 29 ~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~ 58 (112)
.|.|..+ +|-+..|+.|||++.+.
T Consensus 54 ~~~f~P~------~l~Vp~G~~V~~~vts~ 77 (135)
T 2cua_A 54 AFGYQPN------PIEVPQGAEIVFKITSP 77 (135)
T ss_dssp TTEEESS------SEEEETTSEEEEEEEBS
T ss_pred eCEEECC------EEEEcCCCEEEEEEEeC
Confidence 4888873 69999999999999763
No 17
>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=50.83 E-value=15 Score=27.07 Aligned_cols=16 Identities=31% Similarity=0.304 Sum_probs=14.3
Q ss_pred eeCCCCeEEEEEceEE
Q psy11391 44 FMDPGDKIKFRVTSEL 59 (112)
Q Consensus 44 ~~d~ge~IRFRV~~~~ 59 (112)
+|..|+.|+.||.+..
T Consensus 135 ~l~~GD~V~akVisi~ 150 (209)
T 2nn6_I 135 SFRPGDIVLAKVISLG 150 (209)
T ss_dssp TCCSSSEEEEEEEEEE
T ss_pred hcCCCCEEEEEEEEEe
Confidence 4889999999999985
No 18
>2wtp_A ORF131 protein, CZCE; metal binding protein, heavy metal, copper binding; HET: TRS; 1.50A {Ralstonia metallidurans CH34} PDB: 2wto_A*
Probab=50.60 E-value=10 Score=26.83 Aligned_cols=20 Identities=20% Similarity=0.481 Sum_probs=16.7
Q ss_pred eeeCCCCeEEEEEceEEeee
Q psy11391 43 LFMDPGDKIKFRVTSELFTE 62 (112)
Q Consensus 43 l~~d~ge~IRFRV~~~~F~d 62 (112)
+-+..||+|||.|....|.=
T Consensus 73 InV~~GETVrF~v~nkt~~W 92 (131)
T 2wtp_A 73 VNVDSGETVAFRAGEKIVAW 92 (131)
T ss_dssp EEEETTCEEEEEETTEEEEE
T ss_pred EEecCCCEEEEEeCCcEEEE
Confidence 67789999999999887653
No 19
>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=38.41 E-value=33 Score=25.51 Aligned_cols=17 Identities=29% Similarity=0.231 Sum_probs=14.6
Q ss_pred eeeCCCCeEEEEEceEE
Q psy11391 43 LFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 43 l~~d~ge~IRFRV~~~~ 59 (112)
=++..|+.|+.||.+..
T Consensus 101 ~~l~~GD~V~arVi~v~ 117 (229)
T 2ba0_A 101 EVLDIGDAIIAKVLNID 117 (229)
T ss_dssp GTCCTTCEEEEEEEEEC
T ss_pred cccCCCCEEEEEEEEEC
Confidence 36889999999999876
No 20
>3s8f_B Cytochrome C oxidase subunit 2; complex IV, respiratory chain, lipid cubic phase, monoolein, peroxide, electron transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus thermophilus} PDB: 1ehk_B* 2qpd_B* 3qjq_B* 3qjr_B* 3qju_B* 3qjv_B* 1xme_B* 3s8g_B* 4esl_B* 4ev3_B* 4f05_B* 4fa7_B* 4faa_B* 3qjs_B* 3bvd_B* 2qpe_B* 3qjt_B* 3s3b_B* 3s33_B* 3s39_B* ...
Probab=36.01 E-value=17 Score=26.18 Aligned_cols=24 Identities=21% Similarity=0.408 Sum_probs=20.5
Q ss_pred eEEEeccCCCCceeeeeCCCCeEEEEEceE
Q psy11391 29 VWVWEFDNEGDKHDLFMDPGDKIKFRVTSE 58 (112)
Q Consensus 29 ~W~W~~~~ed~~~~l~~d~ge~IRFRV~~~ 58 (112)
.|.|.. +++.+..|+.|||++.+.
T Consensus 87 ~~~f~P------n~l~VP~G~~Vr~~vTS~ 110 (168)
T 3s8f_B 87 AFGYQP------NPIEVPQGAEIVFKITSP 110 (168)
T ss_dssp TTEEES------SSEEEETTSEEEEEEECS
T ss_pred eceEec------CEEEEeCCCeEEEEEecC
Confidence 488886 479999999999999874
No 21
>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=31.49 E-value=46 Score=24.64 Aligned_cols=16 Identities=31% Similarity=0.353 Sum_probs=14.4
Q ss_pred eeCCCCeEEEEEceEE
Q psy11391 44 FMDPGDKIKFRVTSEL 59 (112)
Q Consensus 44 ~~d~ge~IRFRV~~~~ 59 (112)
++..|+.|+.||.+..
T Consensus 114 ~l~~GD~V~a~Vi~v~ 129 (235)
T 2z0s_A 114 LLKVGDYIKAKVVAFD 129 (235)
T ss_dssp SSCTTCEEEEEEEEEC
T ss_pred cCCCCCEEEEEEEEEC
Confidence 7899999999999886
No 22
>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=29.27 E-value=65 Score=24.24 Aligned_cols=16 Identities=25% Similarity=0.405 Sum_probs=14.7
Q ss_pred eeCCCCeEEEEEceEE
Q psy11391 44 FMDPGDKIKFRVTSEL 59 (112)
Q Consensus 44 ~~d~ge~IRFRV~~~~ 59 (112)
++..|+.|+.||.+..
T Consensus 121 ~l~vGD~V~arVi~v~ 136 (251)
T 2je6_I 121 YLDVGDYVIARIENFD 136 (251)
T ss_dssp SCCTTCEEEEEEEEEE
T ss_pred cCCCCCEEEEEEEEEC
Confidence 7899999999999987
No 23
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=28.75 E-value=38 Score=20.53 Aligned_cols=16 Identities=19% Similarity=0.252 Sum_probs=14.4
Q ss_pred eeCCCCeEEEEEceEE
Q psy11391 44 FMDPGDKIKFRVTSEL 59 (112)
Q Consensus 44 ~~d~ge~IRFRV~~~~ 59 (112)
.+..|+.|++||.++.
T Consensus 45 ~~~~Gd~V~v~V~~vd 60 (80)
T 2k52_A 45 NLNVGDEIIVQAIDVR 60 (80)
T ss_dssp GCCTTCEEEEEEEEEE
T ss_pred eeCCCCEEEEEEEEEE
Confidence 5889999999999887
No 24
>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=28.18 E-value=62 Score=20.36 Aligned_cols=19 Identities=26% Similarity=0.433 Sum_probs=16.0
Q ss_pred eeeeeCCCCeEEEEEceEE
Q psy11391 41 HDLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~~ 59 (112)
..+-+..|++|||++.+..
T Consensus 38 ~~i~v~~G~~V~~~~~n~d 56 (112)
T 1iby_A 38 ETLVVKKGDAVKVVVENKS 56 (112)
T ss_dssp CEEEEETTCEEEEEEEECS
T ss_pred CEEEEeCCCEEEEEEEECC
Confidence 5799999999999987653
No 25
>3dwa_A SUBB, subtilase cytotoxin, subunit B; HET: 1PE; 2.08A {Escherichia coli} PDB: 3dwp_A* 3dwq_A*
Probab=26.68 E-value=7.8 Score=27.27 Aligned_cols=23 Identities=13% Similarity=0.258 Sum_probs=21.0
Q ss_pred eeeeeCCCCeEEEEEceEEeeec
Q psy11391 41 HDLFMDPGDKIKFRVTSELFTET 63 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~~F~d~ 63 (112)
.+.|+-.|+.||.+|+.-.|.|.
T Consensus 64 A~YyYtTG~~vrvY~~~nVWtdp 86 (126)
T 3dwa_A 64 ALYFYTTGQPVRIYYEPGVWTYP 86 (126)
T ss_dssp HHHHHHHCCEEEEEEETTCCCCH
T ss_pred hHhhhhcCCcEEEEEecCcccCh
Confidence 47899999999999999999985
No 26
>2p9r_A Alpha-2-M, alpha-2-macroglobulin; human alpha2-macroglobulin, Mg2 domain, X-RAY, signaling protein; 2.30A {Homo sapiens}
Probab=26.18 E-value=37 Score=21.28 Aligned_cols=18 Identities=39% Similarity=0.602 Sum_probs=14.5
Q ss_pred eeeeCCCCeEEEEEceEE
Q psy11391 42 DLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 42 ~l~~d~ge~IRFRV~~~~ 59 (112)
+=-|..||+|+||+....
T Consensus 10 r~iYrPGetV~~~~~~~~ 27 (102)
T 2p9r_A 10 KSIYKPGQTVKFRVVSMD 27 (102)
T ss_dssp CSEECTTCEEEEEEEEEC
T ss_pred CcccCCCCEEEEEEEEEC
Confidence 456789999999988653
No 27
>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=22.92 E-value=74 Score=22.78 Aligned_cols=19 Identities=21% Similarity=0.221 Sum_probs=16.3
Q ss_pred eeeeeCCCCeEEEEEceEE
Q psy11391 41 HDLFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 41 ~~l~~d~ge~IRFRV~~~~ 59 (112)
.+=+++.|+-|+=||.+..
T Consensus 48 ~r~~l~~GDlV~ArV~~~~ 66 (175)
T 2ja9_A 48 NRPTLQVGDLVYARVCTAE 66 (175)
T ss_dssp SCCCCCTTCEEEEEEEECC
T ss_pred hhccCCCCCEEEEEEEEec
Confidence 4568999999999998776
No 28
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=21.16 E-value=62 Score=20.71 Aligned_cols=17 Identities=24% Similarity=0.391 Sum_probs=15.0
Q ss_pred eeeCCCCeEEEEEceEE
Q psy11391 43 LFMDPGDKIKFRVTSEL 59 (112)
Q Consensus 43 l~~d~ge~IRFRV~~~~ 59 (112)
-.+.+|+.|++||.++.
T Consensus 74 ~~~~vGd~V~v~V~~vd 90 (109)
T 2khj_A 74 LVLSVGDEVEAKFTGVD 90 (109)
T ss_dssp GSCCTTCEEEEEEEEEE
T ss_pred hccCCCCEEEEEEEEEE
Confidence 36889999999999987
No 29
>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=21.09 E-value=50 Score=21.56 Aligned_cols=16 Identities=13% Similarity=0.073 Sum_probs=14.2
Q ss_pred eeCCCCeEEEEEceEE
Q psy11391 44 FMDPGDKIKFRVTSEL 59 (112)
Q Consensus 44 ~~d~ge~IRFRV~~~~ 59 (112)
.+..|+.|++||.++.
T Consensus 67 ~~~~Gd~V~vkV~~vd 82 (119)
T 1wi5_A 67 KLKVGQYLNCIVEKVK 82 (119)
T ss_dssp CCCTTCEEEEEEEECC
T ss_pred EeCCCCEEEEEEEEEe
Confidence 6889999999998875
Done!