Query 032568
Match_columns 138
No_of_seqs 109 out of 247
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 04:24:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032568.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032568hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3h0g_D DNA-directed RNA polyme 100.0 1.4E-44 4.6E-49 264.6 10.6 131 3-138 4-134 (135)
2 2c35_A Human RPB4, DNA-directe 100.0 3.7E-41 1.3E-45 250.8 14.6 131 3-138 21-151 (152)
3 3hou_D DNA-directed RNA polyme 100.0 1.5E-32 5.1E-37 212.4 10.6 131 4-137 19-220 (221)
4 1go3_F DNA-directed RNA polyme 100.0 3.8E-31 1.3E-35 186.5 8.8 106 14-135 2-107 (107)
5 1y14_A B32, RPB4, DNA-directed 100.0 3.8E-30 1.3E-34 196.1 11.7 86 49-137 101-186 (187)
6 4ayb_F DNA-directed RNA polyme 99.9 6.7E-29 2.3E-33 176.5 -1.0 111 14-136 2-112 (113)
7 3ayh_A DNA-directed RNA polyme 99.8 6.2E-22 2.1E-26 144.5 5.1 112 20-134 14-134 (136)
8 2ckz_A DNA-directed RNA polyme 99.8 4E-20 1.4E-24 138.5 4.0 113 20-135 7-161 (161)
9 4adn_A FAR1; antibiotic resist 78.1 7.4 0.00025 29.9 6.9 75 50-135 18-92 (222)
10 2lky_A Uncharacterized protein 67.5 13 0.00046 25.5 5.5 83 47-132 2-89 (112)
11 2kvc_A Putative uncharacterize 66.7 26 0.00088 23.7 6.7 80 50-132 3-87 (103)
12 1yse_A DNA-binding protein SAT 51.6 19 0.00065 25.8 4.2 58 50-107 3-61 (141)
13 2ahq_A Sigma-54, RNA polymeras 47.3 25 0.00085 22.4 3.8 30 106-136 26-64 (76)
14 1wud_A ATP-dependent DNA helic 38.3 25 0.00085 22.5 2.8 46 86-135 38-83 (89)
15 3mva_O Transcription terminati 36.1 27 0.00093 27.5 3.3 55 73-129 50-108 (343)
16 2chg_A Replication factor C sm 34.1 54 0.0019 22.3 4.3 62 68-129 161-224 (226)
17 3ol3_A Putative uncharacterize 33.4 1.1E+02 0.0038 20.7 6.3 80 50-132 8-96 (107)
18 3lqv_P Splicing factor 3B subu 30.9 16 0.00055 20.5 0.8 15 115-129 19-33 (39)
19 3k4g_A DNA-directed RNA polyme 30.5 56 0.0019 21.2 3.6 37 50-87 34-70 (86)
20 2h5n_A Hypothetical protein PG 29.4 1.3E+02 0.0045 20.3 5.9 22 73-94 39-60 (133)
21 3fmy_A HTH-type transcriptiona 29.4 52 0.0018 19.5 3.2 28 77-104 16-43 (73)
22 1jw2_A Hemolysin expression mo 28.2 91 0.0031 19.7 4.1 33 59-92 9-41 (72)
23 2dgz_A Werner syndrome protein 26.5 58 0.002 21.9 3.2 45 86-135 47-91 (113)
24 2fho_A Spliceosomal protein SF 26.3 18 0.00063 21.1 0.5 15 115-129 18-32 (47)
25 1r69_A Repressor protein CI; g 25.6 35 0.0012 19.3 1.7 30 75-104 4-33 (69)
26 2a6c_A Helix-turn-helix motif; 25.5 33 0.0011 20.8 1.7 52 74-131 20-71 (83)
27 3fia_A Intersectin-1; EH 1 dom 24.9 27 0.00092 24.0 1.3 25 74-98 51-75 (121)
28 1z3e_B DNA-directed RNA polyme 24.9 67 0.0023 20.0 3.1 36 50-86 31-66 (73)
29 2chq_A Replication factor C sm 23.9 1.2E+02 0.0042 22.2 5.0 60 68-127 161-222 (319)
30 1zug_A Phage 434 CRO protein; 22.8 42 0.0014 19.1 1.7 30 75-104 6-35 (71)
31 1nha_A TFIIF-alpha, transcript 22.6 1.6E+02 0.0054 19.0 4.5 47 20-84 15-65 (82)
32 1coo_A RNA polymerase alpha su 21.9 67 0.0023 21.3 2.7 37 50-87 46-82 (98)
33 2ef8_A C.ECOT38IS, putative tr 21.8 1.3E+02 0.0044 17.5 4.9 53 74-133 12-64 (84)
34 2yb5_A FUSC, putative fusidic 21.7 29 0.00097 26.5 0.9 29 52-81 13-41 (215)
35 2p64_A F-BOX/WD repeat protein 21.7 75 0.0026 18.8 2.6 35 59-95 10-44 (52)
36 3o9x_A Uncharacterized HTH-typ 21.0 82 0.0028 20.7 3.2 35 67-104 69-103 (133)
37 3bos_A Putative DNA replicatio 20.6 1.5E+02 0.005 20.6 4.6 64 66-129 172-241 (242)
38 2jns_A Bromodomain-containing 20.4 71 0.0024 20.5 2.6 34 96-133 14-47 (90)
39 3nso_A Protein S100-A3; EF-han 20.4 1E+02 0.0034 19.9 3.4 13 100-112 50-62 (101)
40 4htp_A DNA ligase 4; helical d 20.2 2.6E+02 0.0089 20.9 6.2 81 22-113 141-222 (240)
41 3gfk_B DNA-directed RNA polyme 20.1 43 0.0015 21.4 1.4 37 50-87 38-74 (79)
42 2xi8_A Putative transcription 20.1 44 0.0015 18.6 1.4 48 77-131 6-53 (66)
No 1
>3h0g_D DNA-directed RNA polymerase II subunit RPB4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=1.4e-44 Score=264.64 Aligned_cols=131 Identities=31% Similarity=0.557 Sum_probs=119.9
Q ss_pred hhhhhhhhccccCccccccccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 032568 3 GEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILS 82 (138)
Q Consensus 3 ~~~~e~~~~l~lG~~f~~~~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~ 82 (138)
+.+||||++|+||++|++++|||||||+.||++..++++.. ..+..+.+.++++|++|+++|++|++++++.+|+++|+
T Consensus 4 ~~~ee~a~~L~lg~eF~~a~~Ls~sEv~~lL~~~~~~r~~~-~~~~~~~~~v~~kTl~Yl~~Fsk~~~~e~~~~v~~lL~ 82 (135)
T 3h0g_D 4 AIFEEDAAQLKLGPEFENEDMLTVSEAKILIETVLAQRARE-TNGEIPMTDVMKKTVAYFNVFARFKTAEATYACERILG 82 (135)
T ss_dssp --CCCCCTTTCSCHHHHHSCBCCHHHHHHHHHHHHHHHHTT-CCSCCCCTTHHHHHHHHHHTTCTTCSHHHHHHHHHHCC
T ss_pred hHHHHhHHhhCCCHhhcCcccccHHHHHHHHHHHHHHHHhc-ccCCcchhHHHHHHHHHHHHccCCCCHHHHHHHHHHHH
Confidence 57899999999999999999999999999999998776532 13355789999999999999999999999999999999
Q ss_pred hcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhhhcC
Q 032568 83 RYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 138 (138)
Q Consensus 83 ~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r~f~ 138 (138)
. |||+||+|+|+||||+|++|||+|||||++ |+ ++++|++||++|++||+||
T Consensus 83 ~-~L~~fEia~L~NL~P~t~dEak~LIpsL~~--r~-~de~L~~IL~~l~~~r~f~ 134 (135)
T 3h0g_D 83 N-RFHKFERAQLGTLCCEDAEEARTLIPSLAN--KI-DDQNLQGILDELSTLRKFQ 134 (135)
T ss_dssp C-CSCHHHHHHHHHHCCCCHHHHHHHCGGGTT--TS-CSHHHHHHHHHHHHHTTTC
T ss_pred h-cCCHHHHHHHccCCCCCHHHHHHHHHHhcc--cC-CHHHHHHHHHHHHHHhccc
Confidence 9 999999999999999999999999999985 45 9999999999999999997
No 2
>2c35_A Human RPB4, DNA-directed RNA polymerase II 16 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: a.60.8.2
Probab=100.00 E-value=3.7e-41 Score=250.76 Aligned_cols=131 Identities=40% Similarity=0.729 Sum_probs=120.0
Q ss_pred hhhhhhhhccccCccccccccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Q 032568 3 GEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILS 82 (138)
Q Consensus 3 ~~~~e~~~~l~lG~~f~~~~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~ 82 (138)
++++|||++|+||++|.|++|||||||+.||++++.+.. ..++..++++++++|++||++|+++++++++.+++++|.
T Consensus 21 ~~~ee~a~~l~~gkef~~~~~Lt~sEV~~lL~~~~~~~~--~~~~~~els~v~~kTl~Yl~~F~k~k~~e~~~~l~e~L~ 98 (152)
T 2c35_A 21 GDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNE--SAEDEQELSEVFMKTLNYTARFSRFKNRETIASVRSLLL 98 (152)
T ss_dssp ---CCBGGGTBCCSSSSSCEECCHHHHHHHHHHHHHHHH--SSCSSCCCCHHHHHHHHHHHHTCSCCSHHHHHHHHHHHH
T ss_pred CCccccHHHHhcchhhcccccccHHHHHHHHHHHHHhhc--ccccccchHHHHHHHHHHHHHccCCCCHHHHHHHHHHHH
Confidence 467999999999999999999999999999999987654 234556899999999999999999999999999999999
Q ss_pred hcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhhhcC
Q 032568 83 RYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 138 (138)
Q Consensus 83 ~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r~f~ 138 (138)
.++||+||+++|+||||+|++|||+||||++. |+ ++++|++||++|++||+||
T Consensus 99 ~~~L~~~E~a~L~NL~P~t~dEar~lipsl~~--r~-sdEeLe~ILd~l~k~r~f~ 151 (152)
T 2c35_A 99 QKKLHKFELACLANLCPETAEESKALIPSLEG--RF-EDEELQQILDDIQTKRSFQ 151 (152)
T ss_dssp TSSCCHHHHHHHHHHCCSSHHHHHHHCGGGTT--TS-CHHHHHHHHHHHHHHCCCC
T ss_pred hcCCCHHHHHHhccCCCCCHHHHHHHHHhhcc--CC-CHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999984 56 9999999999999999996
No 3
>3hou_D DNA-directed RNA polymerase II subunit RPB4; RNA polymerase II, metal-binding, transcription bubble; HET: BRU; 3.20A {Saccharomyces cerevisiae} PDB: 1nt9_D 1y1w_D 1y1y_D 1y77_D* 2b63_D* 2b8k_D 2ja5_D* 2ja6_D* 2ja7_D* 2ja8_D* 2r7z_D 2r92_D 2r93_D 1y1v_D* 3fki_D 3h3v_E 2vum_D* 3hov_D* 3how_D* 3hox_D* ...
Probab=99.98 E-value=1.5e-32 Score=212.39 Aligned_cols=131 Identities=31% Similarity=0.553 Sum_probs=110.3
Q ss_pred hhhhhhhccccCcccccc-----------ccccHHHHHHHHHHHHHHhhhc---C-------------------------
Q 032568 4 EEEENAAELKIGDEFLKA-----------KCLMNCEVAIILDHKYEQLQQT---S------------------------- 44 (138)
Q Consensus 4 ~~~e~~~~l~lG~~f~~~-----------~~Ls~~EV~~iL~~~~~~~~~~---~------------------------- 44 (138)
++||+|+.|+||++|+=. -.|++||++.|+......+.+. +
T Consensus 19 ~~eenaa~l~lg~efql~q~~~~g~~~~lialnlsearl~i~~al~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (221)
T 3hou_D 19 EEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDED 98 (221)
T ss_dssp CCCCCCSSSCCCGGGCSEEECTTSCEEECCBCCTTHHHHHHHHHHHHHHHHHHHTTCC----------------------
T ss_pred cchhhhHHhhcCcccceeecccCCchhHhHhhhhHHHHHHHHHHHHHHHHHhhccccccccccccccccccccccccccc
Confidence 578999999999999621 2599999999876533322210 0
Q ss_pred ----------CCC----------------------CcchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHH
Q 032568 45 ----------DDP----------------------MNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELC 92 (138)
Q Consensus 45 ----------~~~----------------------~~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a 92 (138)
.+. ..+.+.+|+||++||++|++|++++++.+|+++|..+|||+||+|
T Consensus 99 ~~~~~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~g~~seVf~KTLdYl~rFSKfkn~EAv~aVrELL~~~gLheFEiA 178 (221)
T 3hou_D 99 DDLDEDDVNADDDDFMHSETREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVA 178 (221)
T ss_dssp -------------------CTHHHHHHHHHHHHHHSCSCCHHHHHHHHHHHHSCSCCCHHHHHHHHHHHTTSCCCHHHHH
T ss_pred ccccccccccccchhhhccchHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCChHHhh
Confidence 000 124578999999999999999999999999999999999999999
Q ss_pred HHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhhhc
Q 032568 93 VLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKF 137 (138)
Q Consensus 93 ~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r~f 137 (138)
+||||||+|++|||+|||||+. ++ ++++|++||++|++||.|
T Consensus 179 qLANLcPeTaDEARALIPSL~~--k~-sDEeLqeILdeLskyR~~ 220 (221)
T 3hou_D 179 QLGSLACDTADEAKTLIPSLNN--KI-SDDELERILKELSNLETL 220 (221)
T ss_dssp HHHHSCCCSHHHHHHHCTTCTT--SS-CHHHHHHHHHHHHHHSCC
T ss_pred eecccCCCCHHHHHHHHHhhcc--cC-CHHHHHHHHHHHHHhhcc
Confidence 9999999999999999999985 45 999999999999999987
No 4
>1go3_F DNA-directed RNA polymerase subunit F; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: a.60.8.2
Probab=99.97 E-value=3.8e-31 Score=186.51 Aligned_cols=106 Identities=20% Similarity=0.284 Sum_probs=93.8
Q ss_pred cCccccccccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHHH
Q 032568 14 IGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCV 93 (138)
Q Consensus 14 lG~~f~~~~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~ 93 (138)
+|++|.+++|||+|||+.||+++... .++++++++|++|+++|+++++.++.+.+ +.|...||++|++++
T Consensus 2 i~kei~~~~~lt~sEa~~iL~~~~~~---------~e~s~~~~ktl~y~~kFsk~~~e~a~~l~-e~L~~~~l~e~~a~~ 71 (107)
T 1go3_F 2 IGKKILGERYVTVSEAAEIMYNRAQI---------GELSYEQGCALDYLQKFAKLDKEEAKKLV-EELISLGIDEKTAVK 71 (107)
T ss_dssp CSSEEEEEEEECHHHHHHHHHHHHHH---------SCCCHHHHHHHHHHHHHCCSCHHHHHHHH-HHHHHTTCCHHHHHH
T ss_pred chHHHhcccccCHHHHHHHHHHHHhc---------ccccHHHHHHHHHHHHHhCCCHHHHHHHH-HHHHhCCCCHHHHHH
Confidence 68999999999999999999998752 36899999999999999999655555555 445577899999999
Q ss_pred HhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhh
Q 032568 94 LGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 135 (138)
Q Consensus 94 l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r 135 (138)
||||||+|+||||+||||+. + +++|++||++|++||
T Consensus 72 I~nl~P~t~dElraii~~~~-----~-~eel~~ILd~l~k~~ 107 (107)
T 1go3_F 72 IADILPEDLDDLRAIYYKRE-----L-PENAEEILEIVRKYI 107 (107)
T ss_dssp HHHHCCCSHHHHHHHSTTSC-----C-CTTHHHHHHHHTTCC
T ss_pred HHHhCCCCHHHHHHHHhccc-----C-cHHHHHHHHHHHHcC
Confidence 99999999999999999996 2 999999999999986
No 5
>1y14_A B32, RPB4, DNA-directed RNA polymerase II 32 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: a.60.8.2
Probab=99.97 E-value=3.8e-30 Score=196.09 Aligned_cols=86 Identities=28% Similarity=0.585 Sum_probs=82.5
Q ss_pred cchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHH
Q 032568 49 NQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKML 128 (138)
Q Consensus 49 ~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL 128 (138)
.++++++++|++||++|+++++++++.+|+++|..++|++||+|+|+||||+|++|||+||||++. |+ ++++|++||
T Consensus 101 ~~ls~v~~KTLeYl~rFsk~kn~Esa~elre~L~~~kL~efE~aqLaNL~PeTadEaraLIpSle~--rl-sdEeLeeIL 177 (187)
T 1y14_A 101 GGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNN--KI-SDDELERIL 177 (187)
T ss_dssp CSCCHHHHHHHHHHHHHCSCCSHHHHHHHHHHHHTTTCCHHHHHHHHHSCCSSHHHHHHHSGGGTT--TS-CHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHccCCCCHHHHHHHHHHHHhcCCCHHHHHHcCcCCCCCHHHHHHHHHhhcc--CC-CHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999999999999999999984 56 999999999
Q ss_pred HHHHhhhhc
Q 032568 129 NDLSLIKKF 137 (138)
Q Consensus 129 ~~l~~~r~f 137 (138)
++|++||+|
T Consensus 178 d~L~k~r~~ 186 (187)
T 1y14_A 178 KELSNLETL 186 (187)
T ss_dssp HHHHHHCCC
T ss_pred HHHHHhhcc
Confidence 999999998
No 6
>4ayb_F DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_F 2y0s_F 2waq_F 4b1o_F 4b1p_U 2pmz_F 3hkz_F
Probab=99.94 E-value=6.7e-29 Score=176.54 Aligned_cols=111 Identities=18% Similarity=0.226 Sum_probs=89.6
Q ss_pred cCccccccccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHHH
Q 032568 14 IGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCV 93 (138)
Q Consensus 14 lG~~f~~~~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~ 93 (138)
.|++..+.+++|++||+.||.++. ...+.++++++|++|+++|+++++.++.+ +++.|...++++|++|+
T Consensus 2 ~~~~ii~e~~it~~eakeiL~~~~---------~~~~~s~~~~ktl~y~~~Fsk~~~e~a~~-l~e~L~~~~l~~~~~a~ 71 (113)
T 4ayb_F 2 SSVYIVEEHYIPYSVAKKLLSDVI---------KSGSSSNLLQRTYDYLNSVEKCDAESAQK-VVEELSSIISREDVRAV 71 (113)
T ss_dssp -CCEEEEEEEECTTGGGGTTTTTS---------SSSCCCTTHHHHHHHTTTTCSSCHHHHHH-HHHHHHTTCCCHHHHHH
T ss_pred CcceeecccccCHHHHHHHHHHHH---------hcccccHHHHHHHHHHHHHcCCCHHHHHH-HHHHHHHcCCCHHHHHH
Confidence 477788999999999999997752 13467889999999999999996555555 55555567899999999
Q ss_pred HhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhhh
Q 032568 94 LGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKK 136 (138)
Q Consensus 94 l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r~ 136 (138)
|+||||+|++|||+||||+++ +.+++++|++||++|++|.+
T Consensus 72 IanL~P~~~dElrali~s~e~--~~~~deeL~~IL~~l~ky~~ 112 (113)
T 4ayb_F 72 LASICPITPDEVRSILIMDSN--RTYTSEDIQKIIDIIRKYIK 112 (113)
T ss_dssp HHHHCCCSSCCCCTTTTTTCC--CCCCCTHHHHHHHHC-----
T ss_pred HHHcCCCCHHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHhc
Confidence 999999999999999999984 34699999999999999864
No 7
>3ayh_A DNA-directed RNA polymerase III subunit RPC9; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=99.85 E-value=6.2e-22 Score=144.53 Aligned_cols=112 Identities=19% Similarity=0.248 Sum_probs=95.6
Q ss_pred ccccccHHHHHHHHHHHHHHhhhc--CCC-----CCcchhHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHhcCCCHhH
Q 032568 20 KAKCLMNCEVAIILDHKYEQLQQT--SDD-----PMNQVSQVFEKSLQYVKRFS--RYKNPDAVRQVREILSRYQLAEFE 90 (138)
Q Consensus 20 ~~~~Ls~~EV~~iL~~~~~~~~~~--~~~-----~~~~~~~~~~kTl~Yl~~Fs--~~~~~e~~~~v~~ll~~~~l~~~E 90 (138)
++.+|||+||..+|.++..+.... ... ...+++.++++|++|+++|. .+++++++..+.+.|+.+||+++|
T Consensus 14 ~~a~LsN~EVl~~L~~~~~~~~~~~~~~~~~~~~~~~~l~ti~~e~l~YL~~~p~~~~q~~e~i~~l~~~L~~~~Ltk~E 93 (136)
T 3ayh_A 14 RDAYLTNAEVFFHLKEMENEQNARTQERGAAQALVCENLRTIQFEILKYLSSQGNCEGLTKERFLDCIAIFNEFELTKAE 93 (136)
T ss_dssp EEEEECHHHHHHHHHHHHHHHHHHHHHHGGGGCCCCHHHHHHHHHHHHHHHTTTCCTTCCHHHHHHHHHTTTTTCCCHHH
T ss_pred ccccccHHHHHHHHHHHHhhhcccccccCCccccccchHHHHHHHHHHHHHhCCCccccCHHHHHHHHHHHHhcCCCHHH
Confidence 378999999999999987644211 011 12578899999999999994 346899999999999999999999
Q ss_pred HHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhh
Q 032568 91 LCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLI 134 (138)
Q Consensus 91 ~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~ 134 (138)
++||+|+||+|+.|+++||++.+. |+ +++++++||++|+++
T Consensus 94 ~LqivNl~P~t~vel~~iIEe~e~--Rf-see~ie~IL~~i~~~ 134 (136)
T 3ayh_A 94 ILVILNNKPSSVPELYACIEGIEE--RF-KEEDIFKLVEKINTT 134 (136)
T ss_dssp HHHHHHHCCCSHHHHHHHSTTHHH--HH-TTTTHHHHHHHHHHH
T ss_pred HHHHhccCCCCHHHHHHHHHhccc--CC-CHHHHHHHHHHHHHh
Confidence 999999999999999999999984 67 999999999999876
No 8
>2ckz_A DNA-directed RNA polymerase III 18 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=99.79 E-value=4e-20 Score=138.47 Aligned_cols=113 Identities=16% Similarity=0.202 Sum_probs=33.1
Q ss_pred ccccccHHHHHHHHHHHHHHhhh---------------cCCC--CCcchhHHHHHHHHHHHhhcC---------------
Q 032568 20 KAKCLMNCEVAIILDHKYEQLQQ---------------TSDD--PMNQVSQVFEKSLQYVKRFSR--------------- 67 (138)
Q Consensus 20 ~~~~Ls~~EV~~iL~~~~~~~~~---------------~~~~--~~~~~~~~~~kTl~Yl~~Fs~--------------- 67 (138)
.+.+|||+||..+|.++..++.- ..+. +..+++.+++.|++||+++++
T Consensus 7 ~~a~LSN~EVl~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ti~~e~~~YL~~~p~~~~~~~~~~~~~~~~ 86 (161)
T 2ckz_A 7 RNAFLSDYEVLKFLTDLEKKHLWDQKSLAALKKSRSKGKQNRPYNHPELQGITRNVVNYLSINKNFINQEDEGEERESSG 86 (161)
T ss_dssp EEEEECHHHHHHHHHHHHHHTTCSHHHHHCC----------CCCCCHHHHHHHHHHHHHHTC------------------
T ss_pred hhhhhhHHHHHHHHHHhhhhccccccchhhhhcccccccccCCCCCccHHHHHHHHHHHHHhCCcccccccccccccccc
Confidence 46789999999999998765320 0011 124688899999999999987
Q ss_pred ----------CCCHHHHHHHHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhh
Q 032568 68 ----------YKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 135 (138)
Q Consensus 68 ----------~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r 135 (138)
..+++++..+.+.|+.+||+++|++||+|+||.++.|+++||+..+ +|+ +++++++||++|+.++
T Consensus 87 ~~~~~~~~~~~~~~e~i~~l~~~L~~~~Ltk~E~lqivNl~P~s~vel~~iIEe~e--~Rf-see~ie~IL~ii~~~~ 161 (161)
T 2ckz_A 87 AKDAEKSGISKMSDESFAELMTKLNSFKLFKAEKLQIVNQLPANMVHLYSIVEECD--ARF-DEKTIEEMLEIISAYA 161 (161)
T ss_dssp ------------------------------------------------------------------------------
T ss_pred ccccccccccccCHHHHHHHHHHHHhcCCCHHHHHHHhccCCCCHHHHHHHHHhcc--cCC-CHHHHHHHHHHHHHhC
Confidence 3557788888888899999999999999999999999999999998 377 9999999999998874
No 9
>4adn_A FAR1; antibiotic resistance; 1.65A {Staphylococcus aureus} PDB: 4ado_A
Probab=78.11 E-value=7.4 Score=29.90 Aligned_cols=75 Identities=11% Similarity=0.145 Sum_probs=57.9
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHH
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLN 129 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~ 129 (138)
+-+.+=+.+..=++-+....++..+++++.+... .|.+++|.-.+|.+.|+..+.+. ++ +.++.+..|+
T Consensus 18 QYN~IK~qv~~L~~a~~tvnD~~vi~avk~~~~~---------kI~~~f~~~~~eq~~lL~~i~~~-~l-t~~~~e~~L~ 86 (222)
T 4adn_A 18 QYNYIRSVILRLKNVYKTVNDKETVKVIQSETYN---------DINEIFGHIDDDIEESLKVLMNI-RL-SNKEIEAILN 86 (222)
T ss_dssp HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---------HHHTTCSSCCHHHHHHHHHHTST-TC-CHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHH---------HHHHHcccCCHHHHHHHHHHhcc-cC-CHHHHHHHHH
Confidence 4556667777778888888889988888876433 47888899888888888877742 34 8899999999
Q ss_pred HHHhhh
Q 032568 130 DLSLIK 135 (138)
Q Consensus 130 ~l~~~r 135 (138)
.|..|-
T Consensus 87 ~Lk~yV 92 (222)
T 4adn_A 87 KFLEYV 92 (222)
T ss_dssp HHHTTB
T ss_pred HHHHHH
Confidence 888763
No 10
>2lky_A Uncharacterized protein; infectious disease, tuberculosis, DUF proteins, ssgcid, STRU genomics; NMR {Mycobacterium smegmatis str}
Probab=67.48 E-value=13 Score=25.55 Aligned_cols=83 Identities=13% Similarity=0.173 Sum_probs=59.7
Q ss_pred CCcchhHHHHHHHHHHHh-hcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCC----CCCHHHHHhhcccccccCCCCCH
Q 032568 47 PMNQVSQVFEKSLQYVKR-FSRYKNPDAVRQVREILSRYQLAEFELCVLGNLC----PETVEEAIAMVPSIKTRGRAHDD 121 (138)
Q Consensus 47 ~~~~~~~~~~kTl~Yl~~-Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~----P~t~eEar~Lipsl~~k~r~~~d 121 (138)
|...++..+.+.+++|+. |-.-=+...---+..+|.+ .|++.|+.+++... +-|.++++..|-.... ...++
T Consensus 2 ~~~~~~~~l~siv~WLRAGYP~GVP~~Dy~PLLALL~r-~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt~--~~Ps~ 78 (112)
T 2lky_A 2 PGSMVNAFLAKIAAWLNAGYPEGVPGPDRVPLLALLTR-RLTNDEIKAIAEDLEKRAHFDHIDIGVLITQMTD--EMPRE 78 (112)
T ss_dssp CSSCSCHHHHHHHHHHHHHCSSCCCHHHHHHHHHHHTT-TCCHHHHHHHHHHHHHHCCCSCCCSHHHHHHHTT--CCCCH
T ss_pred CcccccHHHHHHHHHHHccCCCCCCCcchHHHHHHHcc-cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhc--cCCCH
Confidence 345667789999999988 5444455555667777764 59999998887655 5566677777777664 34589
Q ss_pred HHHHHHHHHHH
Q 032568 122 EAIEKMLNDLS 132 (138)
Q Consensus 122 e~L~~IL~~l~ 132 (138)
++|.++..-|.
T Consensus 79 eDI~RV~arLa 89 (112)
T 2lky_A 79 EDIERVRRHLA 89 (112)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999887775
No 11
>2kvc_A Putative uncharacterized protein; structural genomics, seattle structural genomi for infectious disease, ssgcid, unknown function; NMR {Mycobacterium tuberculosis}
Probab=66.74 E-value=26 Score=23.74 Aligned_cols=80 Identities=13% Similarity=0.192 Sum_probs=59.8
Q ss_pred chhHHHHHHHHHHHh-hcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCC----CCCHHHHHhhcccccccCCCCCHHHH
Q 032568 50 QVSQVFEKSLQYVKR-FSRYKNPDAVRQVREILSRYQLAEFELCVLGNLC----PETVEEAIAMVPSIKTRGRAHDDEAI 124 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~-Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~----P~t~eEar~Lipsl~~k~r~~~de~L 124 (138)
.++..+.+.+++|+. |..-=++..---+..+|.+ .|++.|+.+++.-. +-|.++++..|-.... ...++++|
T Consensus 3 ~~~~~l~siv~WLRaGYP~GVP~~Dy~PLlALL~r-~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt~--~~Ps~eDI 79 (103)
T 2kvc_A 3 HMNRFLTSIVAWLRAGYPEGIPPTDSFAVLALLCR-RLSHDEVKAVANELMRLGDFDQIDIGVVITHFTD--ELPSPEDV 79 (103)
T ss_dssp CHHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHTT-TSCHHHHHHHHHHHHHHTSSCSSCHHHHHHSCCS--SCSCHHHH
T ss_pred cccHHHHHHHHHHHccCCCCCCCcchHHHHHHHhc-cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhc--cCCCHHHH
Confidence 456678889999988 4444455555667777776 59999999887655 5677888888887774 35699999
Q ss_pred HHHHHHHH
Q 032568 125 EKMLNDLS 132 (138)
Q Consensus 125 ~~IL~~l~ 132 (138)
.++..-|.
T Consensus 80 ~RV~arLa 87 (103)
T 2kvc_A 80 ERVRARLA 87 (103)
T ss_dssp HHHHHHHG
T ss_pred HHHHHHHH
Confidence 99887765
No 12
>1yse_A DNA-binding protein SATB1; all helical, DNA-binding domain, T-cell development; NMR {Homo sapiens} SCOP: a.35.1.7
Probab=51.59 E-value=19 Score=25.75 Aligned_cols=58 Identities=19% Similarity=0.171 Sum_probs=34.2
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHH-HHhcCCCCCHHHHHh
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELC-VLGNLCPETVEEAIA 107 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a-~l~NL~P~t~eEar~ 107 (138)
..+..++|-++|+..-.+--+.+-...|++.|+..++++.-.| .+.|.+..+.-++-.
T Consensus 3 ~~~~~~nkp~~~~~t~~~~vt~~I~~~Ik~eLk~~~IsQ~~FA~~VL~rsQGtLS~LLr 61 (141)
T 1yse_A 3 HVSRSMNKPLEQQVSTNTEVSSEIYQWVRDELKRAGISQAVFARVAFNRTQGLLSEILR 61 (141)
T ss_dssp ----------------CCSCCTHHHHHHHHHHHHHTCCHHHHHHHHCCSCTTHHHHHHH
T ss_pred hHHHHhcCCccccccccccchHHHHHHHHHHHHHcCCCHHHHHHHHHHhhhhhHHHHHc
Confidence 4566889999999998776678899999999999998855555 889999998877643
No 13
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=47.26 E-value=25 Score=22.35 Aligned_cols=30 Identities=17% Similarity=0.336 Sum_probs=20.2
Q ss_pred HhhcccccccCCCCCHHHHHHHH---------HHHHhhhh
Q 032568 106 IAMVPSIKTRGRAHDDEAIEKML---------NDLSLIKK 136 (138)
Q Consensus 106 r~Lipsl~~k~r~~~de~L~~IL---------~~l~~~r~ 136 (138)
+.||.....+ ..+||+.|-++| ..|++||.
T Consensus 26 k~lI~~Ed~~-kPlSD~~I~~~L~~~Gi~IaRRTVaKYRe 64 (76)
T 2ahq_A 26 KEIVENEDKR-KPYSDQEIANILKEKGFKVARRTVAKYRE 64 (76)
T ss_dssp HHHGGGCCSS-SCCCHHHHHHHHTTTSSCCCHHHHHHHHH
T ss_pred HHHHHhcCCC-CCCCHHHHHHHHHHcCCCccHHHHHHHHH
Confidence 3355544322 346999999999 57888885
No 14
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=38.28 E-value=25 Score=22.47 Aligned_cols=46 Identities=11% Similarity=0.122 Sum_probs=32.3
Q ss_pred CCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhh
Q 032568 86 LAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 135 (138)
Q Consensus 86 l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r 135 (138)
|++.....|+...|.|.+++..+ +.+.. +. -..--+.+|+.|..++
T Consensus 38 f~D~tL~eiA~~~P~t~~eL~~i-~Gvg~--~k-~~~yG~~~l~~I~~~~ 83 (89)
T 1wud_A 38 FNDATLIEMAEQMPITASEMLSV-NGVGM--RK-LERFGKPFMALIRAHV 83 (89)
T ss_dssp CCHHHHHHHHHHCCCSHHHHHTS-TTCCH--HH-HHHHHHHHHHHHHHHH
T ss_pred eCHHHHHHHHHhCCCCHHHHhhC-CCCCH--HH-HHHHHHHHHHHHHHHH
Confidence 67777889999999999999876 54432 11 2223466888887765
No 15
>3mva_O Transcription termination factor, mitochondrial; all alpha-helix, protein-DNA, transcription factor, terminat mitochondria; 2.20A {Homo sapiens} PDB: 3n6s_A* 3mvb_O 3n7q_A*
Probab=36.14 E-value=27 Score=27.50 Aligned_cols=55 Identities=13% Similarity=0.064 Sum_probs=37.5
Q ss_pred HHHHHHHHHHhcCCCHhHHHHHhcCCCC----CHHHHHhhcccccccCCCCCHHHHHHHHH
Q 032568 73 AVRQVREILSRYQLAEFELCVLGNLCPE----TVEEAIAMVPSIKTRGRAHDDEAIEKMLN 129 (138)
Q Consensus 73 ~~~~v~~ll~~~~l~~~E~a~l~NL~P~----t~eEar~Lipsl~~k~r~~~de~L~~IL~ 129 (138)
....|...|...|+++..++.|+.-+|. +++.++..+.-|.. --++++++-.++.
T Consensus 50 ~~~~vl~fL~~~G~s~~~i~~iv~~~P~lL~~~~~~l~p~l~fL~~--lG~s~~~i~~il~ 108 (343)
T 3mva_O 50 NEQDLKMFLLSKGASKEVIASIISRYPRAITRTPENLSKRWDLWRK--IVTSDLEIVNILE 108 (343)
T ss_dssp CHHHHHHHHHHTTCCHHHHHHHHHHCGGGGGCCHHHHHHHHHHHTT--TSSCHHHHHHHHH
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHhCcHHHhCCHHHHHHHHHHHHH--cCCCHHHHHHHHH
Confidence 3455678888888888888888887774 56666655555542 1258888777653
No 16
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}
Probab=34.15 E-value=54 Score=22.34 Aligned_cols=62 Identities=16% Similarity=0.158 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHHhcC--CCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHH
Q 032568 68 YKNPDAVRQVREILSRYQ--LAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLN 129 (138)
Q Consensus 68 ~~~~e~~~~v~~ll~~~~--l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~ 129 (138)
+...+....++..+...| +++..+..|+..++.++..+..++-.+....+.++.+++++++.
T Consensus 161 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~~~I~~~~v~~~~~ 224 (226)
T 2chg_A 161 VPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224 (226)
T ss_dssp CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSCBCHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCceecHHHHHHHhc
Confidence 333445555555555444 66777778889999999888877665542212348888888775
No 17
>3ol3_A Putative uncharacterized protein; tuberculosis, RV0543C, ortholog, iodide ION S phasing, structural genomics; HET: PG4 PGE; 1.95A {Mycobacterium smegmatis} PDB: 3ol4_A
Probab=33.42 E-value=1.1e+02 Score=20.65 Aligned_cols=80 Identities=18% Similarity=0.267 Sum_probs=56.0
Q ss_pred chhHHHHHHHHHHHh-hcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCC--------CCCHHHHHhhcccccccCCCCC
Q 032568 50 QVSQVFEKSLQYVKR-FSRYKNPDAVRQVREILSRYQLAEFELCVLGNLC--------PETVEEAIAMVPSIKTRGRAHD 120 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~-Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~--------P~t~eEar~Lipsl~~k~r~~~ 120 (138)
+.+..+.+.+++++. |-.-=+...---+..+|.+ .|++.|+.+++.-. |-|.++++.+|-.... ...+
T Consensus 8 ~~p~~l~siv~WLRaGYPeGVP~~Dy~PLlALL~R-~Ltddev~~Va~~L~~~~~~~~pi~~~dI~~~It~vT~--~~P~ 84 (107)
T 3ol3_A 8 TTTTFMDNVLGWLHKGYPEGVPPKDYFALLALLKR-SLTEDEVVRAAQAILRSTDGQSPVTDDDIRNAVHQIIE--KEPT 84 (107)
T ss_dssp -CHHHHHHHHHHHHHHCTTCBCGGGHHHHHHHHTC-CCCHHHHHHHHHHHHHHCCSSSCBCHHHHHHHHHHHHS--SCCC
T ss_pred cCcHHHHHHHHHHHccCCCCCCCCccHHHHHHhcc-cCCHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHhc--CCcC
Confidence 456688999999988 3332233334556677776 48988887775432 6778999999988874 3568
Q ss_pred HHHHHHHHHHHH
Q 032568 121 DEAIEKMLNDLS 132 (138)
Q Consensus 121 de~L~~IL~~l~ 132 (138)
+++|.++-..|.
T Consensus 85 ~eDi~RV~arLa 96 (107)
T 3ol3_A 85 AEEINQVAARLA 96 (107)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999998877665
No 18
>3lqv_P Splicing factor 3B subunit 1; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_P 2f9j_P
Probab=30.94 E-value=16 Score=20.50 Aligned_cols=15 Identities=33% Similarity=0.612 Sum_probs=11.8
Q ss_pred cCCCCCHHHHHHHHH
Q 032568 115 RGRAHDDEAIEKMLN 129 (138)
Q Consensus 115 k~r~~~de~L~~IL~ 129 (138)
+.|.++|++|+.||-
T Consensus 19 RNrpltDEeLD~mLP 33 (39)
T 3lqv_P 19 RNRPLSDEELDAMFP 33 (39)
T ss_dssp TTCCCCHHHHHHTCC
T ss_pred hcCCCCHHHHHHhCC
Confidence 346679999998874
No 19
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} SCOP: a.60.3.1 PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D
Probab=30.55 E-value=56 Score=21.20 Aligned_cols=37 Identities=5% Similarity=0.201 Sum_probs=30.7
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCC
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLA 87 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~ 87 (138)
.+.++...|-+.+-++-.|. +.++..|++.|...||+
T Consensus 34 Tv~dL~~~se~dLlki~n~G-~KSl~EI~~~L~~~GL~ 70 (86)
T 3k4g_A 34 YIGDLVQRTEVELLXTPNLG-XXSLTEIXDVLASRGLS 70 (86)
T ss_dssp BHHHHHHSCHHHHHTSTTCC-HHHHHHHHHHHHTTTCC
T ss_pred cHHHHHhCCHHHHhhccccC-cccHHHHHHHHHHcCCC
Confidence 57788888888888888885 88889999999888763
No 20
>2h5n_A Hypothetical protein PG_1108; SAD, MCSG,PSI, structural genomics, PR structure initiative; 2.01A {Porphyromonas gingivalis} SCOP: a.287.1.2
Probab=29.43 E-value=1.3e+02 Score=20.27 Aligned_cols=22 Identities=9% Similarity=0.220 Sum_probs=9.8
Q ss_pred HHHHHHHHHHhcCCCHhHHHHH
Q 032568 73 AVRQVREILSRYQLAEFELCVL 94 (138)
Q Consensus 73 ~~~~v~~ll~~~~l~~~E~a~l 94 (138)
-...++.++..+|+++.+...+
T Consensus 39 E~~~l~~~l~~lgl~~~e~~~l 60 (133)
T 2h5n_A 39 EIAVMTREFMRFGILQDQVDLL 60 (133)
T ss_dssp HHHHHHHHHGGGTCCHHHHHHH
T ss_pred HHHHHHHHHHHhCcCHHHHHHH
Confidence 3344444444444444444433
No 21
>3fmy_A HTH-type transcriptional regulator MQSA (YGIT/B3021); helix-turn-helix, DNA-binding, transcription regulation, DNA binding protein; HET: MEQ; 1.40A {Escherichia coli k-12}
Probab=29.37 E-value=52 Score=19.47 Aligned_cols=28 Identities=7% Similarity=0.024 Sum_probs=22.1
Q ss_pred HHHHHHhcCCCHhHHHHHhcCCCCCHHH
Q 032568 77 VREILSRYQLAEFELCVLGNLCPETVEE 104 (138)
Q Consensus 77 v~~ll~~~~l~~~E~a~l~NL~P~t~eE 104 (138)
++.+-...||++.+.|..+++.|.++.-
T Consensus 16 lr~~R~~~gltq~elA~~~gvs~~tis~ 43 (73)
T 3fmy_A 16 IVKVRKKLSLTQKEASEIFGGGVNAFSR 43 (73)
T ss_dssp HHHHHHHTTCCHHHHHHHHCSCTTHHHH
T ss_pred HHHHHHHcCCCHHHHHHHhCcCHHHHHH
Confidence 4555557899999999999999877544
No 22
>1jw2_A Hemolysin expression modulating protein HHA; structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Escherichia coli} SCOP: a.23.5.1 PDB: 2jvp_A 2k5s_A
Probab=28.21 E-value=91 Score=19.67 Aligned_cols=33 Identities=30% Similarity=0.494 Sum_probs=25.1
Q ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHH
Q 032568 59 LQYVKRFSRYKNPDAVRQVREILSRYQLAEFELC 92 (138)
Q Consensus 59 l~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a 92 (138)
.+||-+|-++.+.++.+.|-+-+. ..|+..|+.
T Consensus 9 ~d~L~k~Rrc~s~eTLEkv~e~~~-y~Lt~~el~ 41 (72)
T 1jw2_A 9 TDYLMRLRRCQTIDTLERVIEKNK-YELSDNELA 41 (72)
T ss_dssp HHHHHHHHTSSCHHHHHHHHHHHH-HHSCHHHHH
T ss_pred HHHHHHHHhcCcHHHHHHHHHHhh-ccCCHHHHH
Confidence 799999999999999888877544 345655443
No 23
>2dgz_A Werner syndrome protein variant; HRDC domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.60.8.1
Probab=26.53 E-value=58 Score=21.93 Aligned_cols=45 Identities=13% Similarity=0.131 Sum_probs=31.3
Q ss_pred CCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHhhh
Q 032568 86 LAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 135 (138)
Q Consensus 86 l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~~r 135 (138)
+++.....|+..+|.|.+|+..+ +.+..+ +. ... +.+|+.|..|.
T Consensus 47 f~D~tL~emA~~~P~t~~eL~~I-~Gvg~~-K~-~~y--~~~L~~I~~~~ 91 (113)
T 2dgz_A 47 ATNKILVDMAKMRPTTVENVKRI-DGVSEG-KA-AML--APLWEVIKHFC 91 (113)
T ss_dssp CCHHHHHHHHHHCCCSHHHHHHS-SSCCTT-GG-GGG--HHHHHHHHHHH
T ss_pred ECHHHHHHHHHhCCCCHHHHHhC-CCCCHH-HH-HHH--HHHHHHHHHHH
Confidence 56777889999999999999886 333311 12 223 77888887765
No 24
>2fho_A Spliceosomal protein SF3B155; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=26.31 E-value=18 Score=21.10 Aligned_cols=15 Identities=33% Similarity=0.612 Sum_probs=12.1
Q ss_pred cCCCCCHHHHHHHHH
Q 032568 115 RGRAHDDEAIEKMLN 129 (138)
Q Consensus 115 k~r~~~de~L~~IL~ 129 (138)
+.|.++||+|+.||-
T Consensus 18 rnrpltDEeLD~~LP 32 (47)
T 2fho_A 18 RNRPLSDEELDAMFP 32 (47)
T ss_dssp CCCCSCTTHHHHHSC
T ss_pred ccCCCCHHHHHHhCC
Confidence 346679999999986
No 25
>1r69_A Repressor protein CI; gene regulating protein; 2.00A {Phage 434} SCOP: a.35.1.2 PDB: 1pra_A 1per_L 1rpe_L* 2or1_L* 1r63_A 2r63_A 1sq8_A
Probab=25.62 E-value=35 Score=19.34 Aligned_cols=30 Identities=17% Similarity=0.183 Sum_probs=22.6
Q ss_pred HHHHHHHHhcCCCHhHHHHHhcCCCCCHHH
Q 032568 75 RQVREILSRYQLAEFELCVLGNLCPETVEE 104 (138)
Q Consensus 75 ~~v~~ll~~~~l~~~E~a~l~NL~P~t~eE 104 (138)
..++.+....|+++.+.|..+++.|.++..
T Consensus 4 ~~l~~~r~~~glsq~~lA~~~gis~~~i~~ 33 (69)
T 1r69_A 4 SRVKSKRIQLGLNQAELAQKVGTTQQSIEQ 33 (69)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTSCHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHH
Confidence 456777778889999999888887666543
No 26
>2a6c_A Helix-turn-helix motif; putative transcriptional regulator, structural genomics, JOI for structural genomics, JCSG; HET: CIT; 1.90A {Nitrosomonas europaea} SCOP: a.35.1.13
Probab=25.52 E-value=33 Score=20.84 Aligned_cols=52 Identities=15% Similarity=0.202 Sum_probs=35.0
Q ss_pred HHHHHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHH
Q 032568 74 VRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 131 (138)
Q Consensus 74 ~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l 131 (138)
...++.++...|+++.++|..+++.+.++..... .+...++-+.+..|.+.+
T Consensus 20 ~~~l~~~r~~~glsq~elA~~~gis~~~is~~e~------g~~~~~~~~~l~~la~~l 71 (83)
T 2a6c_A 20 LIVLQEHLRNSGLTQFKAAELLGVTQPRVSDLMR------GKIDLFSLESLIDMITSI 71 (83)
T ss_dssp HHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHT------TCGGGCCHHHHHHHHHHT
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHc------CCCCCCCHHHHHHHHHHc
Confidence 4567788888899999999999998776654332 111013667777776654
No 27
>3fia_A Intersectin-1; EH 1 domain, NESG, structural genomics, PSI- 2, protein structure initiative, northeast structural genomics consortium; 1.45A {Homo sapiens} PDB: 2khn_A
Probab=24.89 E-value=27 Score=24.00 Aligned_cols=25 Identities=20% Similarity=0.134 Sum_probs=16.2
Q ss_pred HHHHHHHHHhcCCCHhHHHHHhcCC
Q 032568 74 VRQVREILSRYQLAEFELCVLGNLC 98 (138)
Q Consensus 74 ~~~v~~ll~~~~l~~~E~a~l~NL~ 98 (138)
...++..+.+.||+..+..+|.+++
T Consensus 51 g~elr~~~~~sgLp~~~L~~Iw~la 75 (121)
T 3fia_A 51 GDQARNFFFQSGLPQPVLAQIWALA 75 (121)
T ss_dssp HHHHHHHHGGGCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4556666666677776666666554
No 28
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=24.88 E-value=67 Score=20.01 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=23.6
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCC
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQL 86 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l 86 (138)
.+.+....|-+.+-++-.|. +.++..|++.|..+|+
T Consensus 31 Tv~dL~~~s~~dLlki~n~G-~kSl~EI~~~L~~~gl 66 (73)
T 1z3e_B 31 TVQELANKTEEDMMKVRNLG-RKSLEEVKAKLEELGL 66 (73)
T ss_dssp BHHHHHTSCHHHHHTSTTCC-HHHHHHHHHHHHHTTC
T ss_pred cHHHHHcCCHHHHHHcCCCC-HHHHHHHHHHHHHhCC
Confidence 45566666666666666664 6666777777766665
No 29
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A
Probab=23.85 E-value=1.2e+02 Score=22.20 Aligned_cols=60 Identities=17% Similarity=0.172 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHhcC--CCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHH
Q 032568 68 YKNPDAVRQVREILSRYQ--LAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKM 127 (138)
Q Consensus 68 ~~~~e~~~~v~~ll~~~~--l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~I 127 (138)
....+....+...+...| +++..+..|+..++.++..+..++-.+...++.++.+++..+
T Consensus 161 ~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~i~~~~v~~~ 222 (319)
T 2chq_A 161 VPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQI 222 (319)
T ss_dssp CCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTTCHHHHHHHHHHHHHSSSCBCHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 333444555555555555 577777789999999999888777554321112365555443
No 30
>1zug_A Phage 434 CRO protein; gene regulating protein, transcription regulation; NMR {Phage 434} SCOP: a.35.1.2 PDB: 2cro_A 3cro_L*
Probab=22.77 E-value=42 Score=19.07 Aligned_cols=30 Identities=7% Similarity=0.179 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCCHhHHHHHhcCCCCCHHH
Q 032568 75 RQVREILSRYQLAEFELCVLGNLCPETVEE 104 (138)
Q Consensus 75 ~~v~~ll~~~~l~~~E~a~l~NL~P~t~eE 104 (138)
..++.+....|++..+.|..+++.+.++..
T Consensus 6 ~~l~~~r~~~glsq~~lA~~~gis~~~i~~ 35 (71)
T 1zug_A 6 ERLKKRRIALKMTQTELATKAGVKQQSIQL 35 (71)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTSCHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHHH
Confidence 456777777889998888888887666543
No 31
>1nha_A TFIIF-alpha, transcription initiation factor IIF, alpha subunit; transcription factor, human general transcription factor TFIIF, RAP74; NMR {Homo sapiens} SCOP: a.4.5.30 PDB: 1onv_A
Probab=22.56 E-value=1.6e+02 Score=19.01 Aligned_cols=47 Identities=17% Similarity=0.259 Sum_probs=33.3
Q ss_pred ccccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHhhc-CC---CCHHHHHHHHHHHHhc
Q 032568 20 KAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFS-RY---KNPDAVRQVREILSRY 84 (138)
Q Consensus 20 ~~~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~Fs-~~---~~~e~~~~v~~ll~~~ 84 (138)
+..++|--+|+..|. ++ +++ |-|-|.+|. ++ ..++.+..+-..|++.
T Consensus 15 ~~~~iTEe~VRryL~-rk------------PmT-----T~dLl~KFK~r~~~~~~~e~v~~~a~ILKki 65 (82)
T 1nha_A 15 GDVQVTEDAVRRYLT-RK------------PMT-----TKDLLKKFQTKKTGLSSEQTVNVLAQILKRL 65 (82)
T ss_dssp -CCCCCHHHHHHHHH-HS------------CBC-----HHHHHHHTTSSCCSSCHHHHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHH-hC------------Ccc-----HHHHHHHHHHhcccCCCHHHHHHHHHHHHHc
Confidence 567889999988886 21 223 788899994 44 5677888888888753
No 32
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=21.91 E-value=67 Score=21.32 Aligned_cols=37 Identities=5% Similarity=0.240 Sum_probs=30.5
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCC
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLA 87 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~ 87 (138)
.+.++..+|-+.+-++-.|. +.++..|++.|..+||+
T Consensus 46 Tv~dL~~~se~dLlki~n~G-~KSl~EI~~~L~~~Gl~ 82 (98)
T 1coo_A 46 YIGDLVQRTEVELLKTPNLG-KKSLTEIKDVLASRGLS 82 (98)
T ss_dssp BHHHHHTSCHHHHTTSTTCC-HHHHHHHHHHHHHTTCC
T ss_pred cHHHHHhCCHHHHHhcCCCC-HHHHHHHHHHHHHcCcc
Confidence 56778888888888888885 88888999999888764
No 33
>2ef8_A C.ECOT38IS, putative transcription factor; helix-turn-helix, DNA binding protein, transcription regulator; HET: CME; 1.95A {Enterobacteria phage P2}
Probab=21.78 E-value=1.3e+02 Score=17.51 Aligned_cols=53 Identities=15% Similarity=0.218 Sum_probs=34.8
Q ss_pred HHHHHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHh
Q 032568 74 VRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 133 (138)
Q Consensus 74 ~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~ 133 (138)
...++.+....|+++.+.|..+++.+.++... +.-.+.++-+.+..++..|+.
T Consensus 12 ~~~l~~~r~~~glsq~~lA~~~gis~~~i~~~-------e~g~~~~~~~~l~~~~~~l~~ 64 (84)
T 2ef8_A 12 VQLLTKLRKEASLSQSELAIFLGLSQSDISKI-------ESFERRLDALELFELLEVVAS 64 (84)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHH-------HTTSSCCBHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHH-------HcCCCCCCHHHHHHHHHHHcc
Confidence 35677777788999999999988877554332 211122466777777776654
No 34
>2yb5_A FUSC, putative fusidic acid resistance protein; translation, antibiotic resistance, zinc finger; 2.10A {Staphylococcus aureus}
Probab=21.70 E-value=29 Score=26.46 Aligned_cols=29 Identities=14% Similarity=0.280 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 032568 52 SQVFEKSLQYVKRFSRYKNPDAVRQVREIL 81 (138)
Q Consensus 52 ~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll 81 (138)
+.+=+.+..=++.+.. .++..+.+++.+.
T Consensus 13 n~IK~q~~~L~~~~~t-nD~~vi~a~k~~~ 41 (215)
T 2yb5_A 13 VKVKQLVYQLIKLYRT-NDMNSHKTQKDFL 41 (215)
T ss_dssp HHHHHHHHHHHHHHHS-SCTTTTHHHHHHH
T ss_pred HHHHHHHHHHHHHHhc-CCHHHHHHHHHHH
Confidence 3444445555555666 5666666665543
No 35
>2p64_A F-BOX/WD repeat protein 1A; right handed super-helical bundle, ligase; 2.50A {Homo sapiens}
Probab=21.66 E-value=75 Score=18.79 Aligned_cols=35 Identities=20% Similarity=0.364 Sum_probs=26.2
Q ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhcCCCHhHHHHHh
Q 032568 59 LQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLG 95 (138)
Q Consensus 59 l~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~ 95 (138)
-.+++.|.++...+.+.-|+.+++++ ..+.--+|-
T Consensus 10 ~~cl~~f~~Wse~eQvdfv~~L~~rm--~hyQ~g~In 44 (52)
T 2p64_A 10 ELCVKYFEQWSESDQVEFVEHLISQM--CHYQHGHIN 44 (52)
T ss_dssp HHHHHHHTTSCHHHHHHHHHHHHHTS--CHHHHHHHH
T ss_pred HHHHHHHHhccchHHHHHHHHHHHHh--hHHHHHHHH
Confidence 35788899999999999999998764 555544443
No 36
>3o9x_A Uncharacterized HTH-type transcriptional regulato; HTH-XRE DNA binding motif, transcriptional regulator, bacter antitoxin, Zn binding protein, transcription regulator-DNA; HET: DNA; 2.10A {Escherichia coli} PDB: 3gn5_A* 3gn5_B* 2kz8_A
Probab=20.97 E-value=82 Score=20.71 Aligned_cols=35 Identities=9% Similarity=0.062 Sum_probs=25.2
Q ss_pred CCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCCCCCHHH
Q 032568 67 RYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEE 104 (138)
Q Consensus 67 ~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~P~t~eE 104 (138)
.+-.++. ++.+-+..||++.+.|.++++.+.|+.-
T Consensus 69 ~~~~~~~---l~~~R~~~glsq~~la~~~g~s~~~i~~ 103 (133)
T 3o9x_A 69 ETVAPEF---IVKVRKKLSLTQKEASEIFGGGVNAFSR 103 (133)
T ss_dssp TTCCHHH---HHHHHHHTTCCHHHHHHHHCSCTTHHHH
T ss_pred cCCCHHH---HHHHHHHcCCCHHHHHHHHCCCHHHHHH
Confidence 3334555 4444457899999999999999887643
No 37
>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A
Probab=20.58 E-value=1.5e+02 Score=20.56 Aligned_cols=64 Identities=11% Similarity=0.066 Sum_probs=43.3
Q ss_pred cCCCCHHHHHHHHHHHHhcC--CCHhHHHHHhcCCCCCHHHHHhhcccccc----cCCCCCHHHHHHHHH
Q 032568 66 SRYKNPDAVRQVREILSRYQ--LAEFELCVLGNLCPETVEEAIAMVPSIKT----RGRAHDDEAIEKMLN 129 (138)
Q Consensus 66 s~~~~~e~~~~v~~ll~~~~--l~~~E~a~l~NL~P~t~eEar~Lipsl~~----k~r~~~de~L~~IL~ 129 (138)
......+....+...+...| +++..+..|+..+|.++.+++.++-.+.. .++.++.++++++|.
T Consensus 172 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~a~~~~~~It~~~v~~~l~ 241 (242)
T 3bos_A 172 QPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLRTLFDVLDRLDKASMVHQRKLTIPFVKEMLR 241 (242)
T ss_dssp CCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHhh
Confidence 44444556666666666544 67777789999999999999877654421 123348888888764
No 38
>2jns_A Bromodomain-containing protein 4; ET-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=20.44 E-value=71 Score=20.47 Aligned_cols=34 Identities=15% Similarity=0.218 Sum_probs=24.5
Q ss_pred cCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHHHh
Q 032568 96 NLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 133 (138)
Q Consensus 96 NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l~~ 133 (138)
+-.|-|.+|-+.|--.+. ++ +.+.|..++++|++
T Consensus 14 ~~~~mT~eEK~~Ls~~I~---~L-p~e~L~~Vi~II~~ 47 (90)
T 2jns_A 14 KCKPMSYEEKRQLSLDIN---KL-PGEKLGRVVHIIQS 47 (90)
T ss_dssp SCCCCCHHHHHHHHHHHT---TS-CHHHHTTHHHHHHT
T ss_pred CCCCCCHHHHHHHHHHHH---Hc-CHHHHHHHHHHHHh
Confidence 346777788777777776 34 77888888888764
No 39
>3nso_A Protein S100-A3; EF-hand, Ca2+, Zn2+ binding, metal binding protein; 1.45A {Homo sapiens} SCOP: a.39.1.2 PDB: 3nsi_A 1kso_A 3nsk_A 3nsl_A
Probab=20.37 E-value=1e+02 Score=19.86 Aligned_cols=13 Identities=0% Similarity=-0.158 Sum_probs=6.8
Q ss_pred CCHHHHHhhcccc
Q 032568 100 ETVEEAIAMVPSI 112 (138)
Q Consensus 100 ~t~eEar~Lipsl 112 (138)
-|.+++..+|-.+
T Consensus 50 ~~~~ev~~~i~~~ 62 (101)
T 3nso_A 50 FRECDYNKFMSVL 62 (101)
T ss_dssp TCHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHh
Confidence 3455555555544
No 40
>4htp_A DNA ligase 4; helical domain, DNA binding domain, DNA, ligase-HYD complex; HET: DNA; 2.25A {Homo sapiens} PDB: 4hto_A*
Probab=20.23 E-value=2.6e+02 Score=20.88 Aligned_cols=81 Identities=10% Similarity=0.076 Sum_probs=48.5
Q ss_pred ccccHHHHHHHHHHHHHHhhhcCCCCCcchhHHHHHHHHHHHh-hcCCCCHHHHHHHHHHHHhcCCCHhHHHHHhcCCCC
Q 032568 22 KCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKR-FSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE 100 (138)
Q Consensus 22 ~~Ls~~EV~~iL~~~~~~~~~~~~~~~~~~~~~~~kTl~Yl~~-Fs~~~~~e~~~~v~~ll~~~~l~~~E~a~l~NL~P~ 100 (138)
.+||+.||...|.+....-. .+ + ..+-...+.. |.++++.++.=.+|-++....+--.|...+.-+ ..
T Consensus 141 ~~LTv~~V~~~L~~IA~~~g-----~~---s--~~~k~~~l~~Ll~~~t~~E~k~liRiil~~lriG~~e~~vl~a~-h~ 209 (240)
T 4htp_A 141 GSLTIQQVNDLLDSIASNNS-----AK---R--KDLIKKSLLQLITQSSALEQKWLIRMIIKDLKLGVSQQTIFSVF-HN 209 (240)
T ss_dssp CCCBHHHHHHHHHHHHHHHH-----TT---C--HHHHHHHHHHHHHTSCHHHHHHHHHHHHTCCCCSSCHHHHHHHH-CT
T ss_pred CCcCHHHHHHHHHHHHHhhC-----cc---c--HHHHHHHHHHHHHHCCHHHHHHHHHHHhcccccCccHhHHHHHh-Ch
Confidence 67999999999999764211 01 1 1122233444 677777888777888887554333333333333 34
Q ss_pred CHHHHHhhccccc
Q 032568 101 TVEEAIAMVPSIK 113 (138)
Q Consensus 101 t~eEar~Lipsl~ 113 (138)
++.+|-.+..+|.
T Consensus 210 ~~~~a~~~~~dL~ 222 (240)
T 4htp_A 210 DAAELHNVTTDLE 222 (240)
T ss_dssp THHHHHHHHCCHH
T ss_pred hHHHHHHhhCCHH
Confidence 6777777776664
No 41
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} SCOP: a.60.3.1
Probab=20.11 E-value=43 Score=21.38 Aligned_cols=37 Identities=14% Similarity=0.229 Sum_probs=27.2
Q ss_pred chhHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCCC
Q 032568 50 QVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLA 87 (138)
Q Consensus 50 ~~~~~~~kTl~Yl~~Fs~~~~~e~~~~v~~ll~~~~l~ 87 (138)
.+.++...|-+.+-++-.|. +.++..|++.|..+||+
T Consensus 38 Tv~dL~~~se~dLlki~n~G-~kSl~EI~~~L~e~Gl~ 74 (79)
T 3gfk_B 38 TVQELANKTEEDMMKVRNLG-RKSLEEVKAKLEELGLG 74 (79)
T ss_dssp BHHHHTTCCHHHHTTSTTCH-HHHHHHHHHHHHHTTCC
T ss_pred CHHHHHhCCHHHHHHcCCCC-HhHHHHHHHHHHHcCCC
Confidence 55667777777777777774 77778888888877764
No 42
>2xi8_A Putative transcription regulator; HTH DNA-binding motif; HET: GOL; 1.21A {Enterococcus faecalis} PDB: 2gzu_A 1utx_A* 2xj3_A 2xiu_A
Probab=20.09 E-value=44 Score=18.60 Aligned_cols=48 Identities=15% Similarity=0.137 Sum_probs=31.2
Q ss_pred HHHHHHhcCCCHhHHHHHhcCCCCCHHHHHhhcccccccCCCCCHHHHHHHHHHH
Q 032568 77 VREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 131 (138)
Q Consensus 77 v~~ll~~~~l~~~E~a~l~NL~P~t~eEar~Lipsl~~k~r~~~de~L~~IL~~l 131 (138)
++.+....|++..+.|..+++.|.++...-. .+ +.++.+.+..|.+.+
T Consensus 6 l~~~r~~~g~s~~~lA~~~gis~~~i~~~e~------g~-~~~~~~~l~~i~~~l 53 (66)
T 2xi8_A 6 LKLIREKKKISQSELAALLEVSRQTINGIEK------NK-YNPSLQLALKIAYYL 53 (66)
T ss_dssp HHHHHHHTTCCHHHHHHHHTSCHHHHHHHHT------TS-CCCCHHHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHc------CC-CCCCHHHHHHHHHHH
Confidence 5666777899999999888887766543321 11 223677777766554
Done!