Query 042488
Match_columns 78
No_of_seqs 100 out of 148
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 11:21:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042488.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042488hhsearch_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 99.9 3.5E-24 1.2E-28 146.6 5.8 63 12-78 72-134 (135)
2 3hou_D DNA-directed RNA polyme 99.9 1.1E-21 3.7E-26 144.4 7.4 64 11-77 157-220 (221)
3 2c35_A Human RPB4, DNA-directe 99.8 3.2E-21 1.1E-25 133.6 7.4 63 13-78 89-151 (152)
4 1y14_A B32, RPB4, DNA-directed 99.8 1E-19 3.5E-24 131.1 7.6 62 13-77 125-186 (187)
5 1go3_F DNA-directed RNA polyme 99.7 1E-17 3.4E-22 110.5 4.4 56 14-75 52-107 (107)
6 4ayb_F DNA-directed RNA polyme 99.7 2.3E-18 7.7E-23 114.4 1.2 61 14-76 52-112 (113)
7 3ayh_A DNA-directed RNA polyme 99.3 1.2E-12 4.1E-17 88.7 2.8 59 13-74 76-134 (136)
8 2ckz_A DNA-directed RNA polyme 99.1 3.7E-12 1.3E-16 89.1 0.0 60 13-75 102-161 (161)
9 4adn_A FAR1; antibiotic resist 57.2 11 0.00038 27.3 3.7 43 31-75 50-92 (222)
10 2h5n_A Hypothetical protein PG 49.7 47 0.0016 21.0 6.0 52 14-72 40-92 (133)
11 2hjm_A Hypothetical protein PF 47.0 11 0.00038 24.6 2.1 29 45-76 56-84 (103)
12 3mva_O Transcription terminati 46.5 55 0.0019 23.5 6.0 55 13-69 50-108 (343)
13 2p1h_A APAF-1, apoptotic prote 42.6 50 0.0017 19.3 6.1 58 11-73 21-79 (94)
14 3fmy_A HTH-type transcriptiona 40.0 34 0.0012 18.9 3.3 33 11-43 10-42 (73)
15 3o9x_A Uncharacterized HTH-typ 37.7 34 0.0012 20.8 3.3 33 11-43 70-102 (133)
16 1r69_A Repressor protein CI; g 36.6 20 0.00068 18.8 1.8 29 15-43 4-32 (69)
17 2a6c_A Helix-turn-helix motif; 36.6 18 0.00063 20.4 1.8 52 14-71 20-71 (83)
18 2nz7_A NOD1, caspase recruitme 35.5 79 0.0027 19.5 5.2 50 19-73 35-84 (98)
19 1zug_A Phage 434 CRO protein; 34.1 23 0.00079 18.6 1.8 29 15-43 6-34 (71)
20 3oq9_A Tumor necrosis factor r 31.3 44 0.0015 20.4 3.0 63 9-73 7-70 (86)
21 2xi8_A Putative transcription 30.1 25 0.00085 18.1 1.5 48 17-71 6-53 (66)
22 2b5a_A C.BCLI; helix-turn-heli 29.4 31 0.001 18.5 1.8 30 14-43 12-41 (77)
23 1y7y_A C.AHDI; helix-turn-heli 29.1 31 0.0011 18.2 1.8 51 14-71 15-65 (74)
24 3b7h_A Prophage LP1 protein 11 29.0 31 0.0011 18.5 1.8 51 15-71 10-60 (78)
25 3t76_A VANU, transcriptional r 28.2 31 0.0011 20.5 1.8 54 11-72 23-76 (88)
26 3ezq_A Tumor necrosis factor r 28.2 1.1E+02 0.0037 19.8 4.6 64 9-74 15-79 (115)
27 2r1j_L Repressor protein C2; p 28.0 27 0.00091 18.1 1.4 29 15-43 8-36 (68)
28 1neq_A DNA-binding protein NER 27.5 30 0.001 19.9 1.7 35 11-45 8-42 (74)
29 3kz3_A Repressor protein CI; f 27.3 33 0.0011 19.0 1.8 50 15-71 15-64 (80)
30 3s8q_A R-M controller protein; 27.2 35 0.0012 18.8 1.8 29 14-42 13-41 (82)
31 2ef8_A C.ECOT38IS, putative tr 26.4 37 0.0013 18.5 1.8 52 15-73 13-64 (84)
32 1x57_A Endothelial differentia 26.4 24 0.00082 20.0 1.1 51 14-71 15-65 (91)
33 3bq3_A Defective in cullin ned 26.2 72 0.0025 23.2 3.8 31 24-54 124-155 (270)
34 2wiu_B HTH-type transcriptiona 25.9 38 0.0013 18.7 1.8 50 15-71 15-64 (88)
35 1adr_A P22 C2 repressor; trans 25.9 30 0.001 18.4 1.4 49 15-70 8-56 (76)
36 2jr2_A UPF0352 protein CPS_261 25.4 50 0.0017 20.4 2.4 15 59-73 7-21 (76)
37 3bs3_A Putative DNA-binding pr 25.4 33 0.0011 18.3 1.5 50 15-71 13-62 (76)
38 2kpj_A SOS-response transcript 24.4 38 0.0013 19.4 1.7 51 14-71 11-61 (94)
39 2chg_A Replication factor C sm 24.0 1.3E+02 0.0043 18.3 5.5 45 25-69 180-224 (226)
40 3omt_A Uncharacterized protein 24.0 27 0.00092 18.9 0.9 50 15-71 11-60 (73)
41 2juz_A UPF0352 protein HI0840; 23.9 54 0.0018 20.5 2.4 15 59-73 7-21 (80)
42 2juw_A UPF0352 protein SO_2176 23.9 55 0.0019 20.4 2.4 15 59-73 7-21 (80)
43 1wud_A ATP-dependent DNA helic 23.9 85 0.0029 18.6 3.3 59 13-75 18-83 (89)
44 3p04_A Uncharacterized BCR; SE 23.5 60 0.0021 20.0 2.6 38 35-73 8-52 (87)
45 2k9q_A Uncharacterized protein 23.1 36 0.0012 18.6 1.4 29 15-43 5-33 (77)
46 2jpq_A UPF0352 protein VP2129; 23.1 58 0.002 20.4 2.4 15 59-73 7-21 (83)
47 2jrx_A UPF0352 protein YEJL; h 23.0 57 0.0019 20.5 2.4 15 59-73 7-21 (83)
48 2zxy_A Cytochrome C552, cytoch 22.5 98 0.0034 16.5 3.2 27 46-75 58-87 (87)
49 2kz5_A Transcription factor NF 22.5 1E+02 0.0035 19.6 3.6 25 10-34 41-65 (91)
50 2l49_A C protein; P2 bacteriop 22.4 45 0.0015 18.9 1.7 28 15-42 7-34 (99)
51 3nso_A Protein S100-A3; EF-han 22.3 1.2E+02 0.0041 18.2 3.8 46 26-72 29-83 (101)
52 2ewt_A BLDD, putative DNA-bind 22.2 47 0.0016 17.4 1.7 51 14-71 10-62 (71)
53 2dgz_A Werner syndrome protein 21.8 1E+02 0.0035 19.4 3.5 58 13-75 27-91 (113)
54 3g5g_A Regulatory protein; tra 21.1 51 0.0017 19.5 1.8 30 14-43 30-59 (99)
55 3fia_A Intersectin-1; EH 1 dom 21.0 63 0.0021 20.8 2.4 28 11-38 48-75 (121)
56 1dgn_A Iceberg (protease inhib 20.7 1.5E+02 0.005 17.7 5.7 50 20-73 28-77 (89)
57 2obh_A Centrin-2; DNA repair c 20.4 1.3E+02 0.0043 17.7 3.6 11 60-70 113-123 (143)
58 1b0n_A Protein (SINR protein); 20.4 54 0.0019 18.8 1.8 15 60-74 91-105 (111)
59 2lmt_A Calmodulin-related prot 20.3 1.2E+02 0.0041 18.0 3.5 9 60-68 117-125 (148)
60 3vk0_A NHTF, transcriptional r 20.1 51 0.0017 19.6 1.7 52 13-71 22-73 (114)
No 1
>3h0g_D DNA-directed RNA polymerase II subunit RPB4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=99.90 E-value=3.5e-24 Score=146.58 Aligned_cols=63 Identities=35% Similarity=0.615 Sum_probs=59.5
Q ss_pred ccHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhhhcC
Q 042488 12 LKIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 78 (78)
Q Consensus 12 ~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~f~ 78 (78)
-++.+||++|++ +||+||+|||+||||+|+||||+|||||.+ |+ +|++|++||++|++||+||
T Consensus 72 e~~~~v~~lL~~-~L~~fEia~L~NL~P~t~dEak~LIpsL~~--r~-~de~L~~IL~~l~~~r~f~ 134 (135)
T 3h0g_D 72 EATYACERILGN-RFHKFERAQLGTLCCEDAEEARTLIPSLAN--KI-DDQNLQGILDELSTLRKFQ 134 (135)
T ss_dssp HHHHHHHHHCCC-CSCHHHHHHHHHHCCCCHHHHHHHCGGGTT--TS-CSHHHHHHHHHHHHHTTTC
T ss_pred HHHHHHHHHHHh-cCCHHHHHHHccCCCCCHHHHHHHHHHhcc--cC-CHHHHHHHHHHHHHHhccc
Confidence 367899999999 999999999999999999999999999985 46 9999999999999999998
No 2
>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=99.85 E-value=1.1e-21 Score=144.43 Aligned_cols=64 Identities=30% Similarity=0.603 Sum_probs=60.0
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhhhc
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKF 77 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~f 77 (78)
+-++..||++|++.+||+||+|+||||||+|+||||+|||||.. ++ +|++|++||++|++||.|
T Consensus 157 ~EAv~aVrELL~~~gLheFEiAqLANLcPeTaDEARALIPSL~~--k~-sDEeLqeILdeLskyR~~ 220 (221)
T 3hou_D 157 QETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNN--KI-SDDELERILKELSNLETL 220 (221)
T ss_dssp HHHHHHHHHHHTTSCCCHHHHHHHHHSCCCSHHHHHHHCTTCTT--SS-CHHHHHHHHHHHHHHSCC
T ss_pred HHHHHHHHHHHHhcCCChHHhheecccCCCCHHHHHHHHHhhcc--cC-CHHHHHHHHHHHHHhhcc
Confidence 34689999999999999999999999999999999999999985 46 999999999999999987
No 3
>2c35_A Human RPB4, DNA-directed RNA polymerase II 16 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: a.60.8.2
Probab=99.84 E-value=3.2e-21 Score=133.58 Aligned_cols=63 Identities=40% Similarity=0.735 Sum_probs=59.5
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhhhcC
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 78 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~f~ 78 (78)
++.+|++.|.+++||+||+|+|+||||+|+|||++||||+.. |+ ++++|++||++|++||+||
T Consensus 89 ~~~~l~e~L~~~~L~~~E~a~L~NL~P~t~dEar~lipsl~~--r~-sdEeLe~ILd~l~k~r~f~ 151 (152)
T 2c35_A 89 TIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEG--RF-EDEELQQILDDIQTKRSFQ 151 (152)
T ss_dssp HHHHHHHHHHTSSCCHHHHHHHHHHCCSSHHHHHHHCGGGTT--TS-CHHHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHHhcCCCHHHHHHhccCCCCCHHHHHHHHHhhcc--CC-CHHHHHHHHHHHHHHHhhc
Confidence 477899999999999999999999999999999999999983 67 9999999999999999997
No 4
>1y14_A B32, RPB4, DNA-directed RNA polymerase II 32 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: a.60.8.2
Probab=99.80 E-value=1e-19 Score=131.07 Aligned_cols=62 Identities=31% Similarity=0.628 Sum_probs=58.5
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhhhc
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKF 77 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~f 77 (78)
++.+|++.|.+++||+||+|+|+||||+|++|||+||||+.. ++ ++++|++||+.|++||+|
T Consensus 125 sa~elre~L~~~kL~efE~aqLaNL~PeTadEaraLIpSle~--rl-sdEeLeeILd~L~k~r~~ 186 (187)
T 1y14_A 125 TVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNN--KI-SDDELERILKELSNLETL 186 (187)
T ss_dssp HHHHHHHHHHTTTCCHHHHHHHHHSCCSSHHHHHHHSGGGTT--TS-CHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHhcCCCHHHHHHcCcCCCCCHHHHHHHHHhhcc--CC-CHHHHHHHHHHHHHhhcc
Confidence 477899999999999999999999999999999999999984 57 999999999999999998
No 5
>1go3_F DNA-directed RNA polymerase subunit F; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: a.60.8.2
Probab=99.70 E-value=1e-17 Score=110.49 Aligned_cols=56 Identities=14% Similarity=0.152 Sum_probs=49.1
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhh
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
+..+++.|.+.|||+|++++||||||+|+||||+||||+. + |++|++||+.|++||
T Consensus 52 a~~l~e~L~~~~l~e~~a~~I~nl~P~t~dElraii~~~~-----~-~eel~~ILd~l~k~~ 107 (107)
T 1go3_F 52 AKKLVEELISLGIDEKTAVKIADILPEDLDDLRAIYYKRE-----L-PENAEEILEIVRKYI 107 (107)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHHHCCCSHHHHHHHSTTSC-----C-CTTHHHHHHHHTTCC
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHhCCCCHHHHHHHHhccc-----C-cHHHHHHHHHHHHcC
Confidence 3444555667889999999999999999999999999996 3 999999999999985
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=99.69 E-value=2.3e-18 Score=114.38 Aligned_cols=61 Identities=25% Similarity=0.261 Sum_probs=49.2
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhhh
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKK 76 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~ 76 (78)
+..+++-|.+.++++||+|+||||||+|+||||+||||+.+ +.++|++|++||+.|++|++
T Consensus 52 a~~l~e~L~~~~l~~~~~a~IanL~P~~~dElrali~s~e~--~~~~deeL~~IL~~l~ky~~ 112 (113)
T 4ayb_F 52 AQKVVEELSSIISREDVRAVLASICPITPDEVRSILIMDSN--RTYTSEDIQKIIDIIRKYIK 112 (113)
T ss_dssp HHHHHHHHHTTCCCHHHHHHHHHHCCCSSCCCCTTTTTTCC--CCCCCTHHHHHHHHC-----
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHcCCCCHHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHhc
Confidence 45566667778999999999999999999999999999984 33489999999999999974
No 7
>3ayh_A DNA-directed RNA polymerase III subunit RPC9; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=99.28 E-value=1.2e-12 Score=88.71 Aligned_cols=59 Identities=25% Similarity=0.394 Sum_probs=53.4
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhh
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLI 74 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~ 74 (78)
+|..+.+.|+.++|+++|+.||+|+||.|+.|+.++|++.. .|| +|+++++||+.++++
T Consensus 76 ~i~~l~~~L~~~~Ltk~E~LqivNl~P~t~vel~~iIEe~e--~Rf-see~ie~IL~~i~~~ 134 (136)
T 3ayh_A 76 RFLDCIAIFNEFELTKAEILVILNNKPSSVPELYACIEGIE--ERF-KEEDIFKLVEKINTT 134 (136)
T ss_dssp HHHHHHHTTTTTCCCHHHHHHHHHHCCCSHHHHHHHSTTHH--HHH-TTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCHHHHHHHhccCCCCHHHHHHHHHhcc--cCC-CHHHHHHHHHHHHHh
Confidence 46667777778999999999999999999999999999998 378 999999999999875
No 8
>2ckz_A DNA-directed RNA polymerase III 18 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=99.15 E-value=3.7e-12 Score=89.09 Aligned_cols=60 Identities=22% Similarity=0.320 Sum_probs=0.0
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhh
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
+|..+.+.|..++|+++|+.||+|+||.|+.|++++|+... .|| +++++++||+.++.++
T Consensus 102 ~i~~l~~~L~~~~Ltk~E~lqivNl~P~s~vel~~iIEe~e--~Rf-see~ie~IL~ii~~~~ 161 (161)
T 2ckz_A 102 SFAELMTKLNSFKLFKAEKLQIVNQLPANMVHLYSIVEECD--ARF-DEKTIEEMLEIISAYA 161 (161)
T ss_dssp ---------------------------------------------------------------
T ss_pred HHHHHHHHHHhcCCCHHHHHHHhccCCCCHHHHHHHHHhcc--cCC-CHHHHHHHHHHHHHhC
Confidence 45566666777899999999999999999999999999998 488 9999999999998764
No 9
>4adn_A FAR1; antibiotic resistance; 1.65A {Staphylococcus aureus} PDB: 4ado_A
Probab=57.16 E-value=11 Score=27.25 Aligned_cols=43 Identities=12% Similarity=0.134 Sum_probs=35.5
Q ss_pred HHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhh
Q 042488 31 LCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 31 ~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
..-|-+++|+-.+|.+.|+..+... +. +.++.++.|+.|+.|.
T Consensus 50 ~~kI~~~f~~~~~eq~~lL~~i~~~-~l-t~~~~e~~L~~Lk~yV 92 (222)
T 4adn_A 50 YNDINEIFGHIDDDIEESLKVLMNI-RL-SNKEIEAILNKFLEYV 92 (222)
T ss_dssp HHHHHTTCSSCCHHHHHHHHHHTST-TC-CHHHHHHHHHHHHTTB
T ss_pred HHHHHHHcccCCHHHHHHHHHHhcc-cC-CHHHHHHHHHHHHHHH
Confidence 4457789999999999999988753 44 7999999999998873
No 10
>2h5n_A Hypothetical protein PG_1108; SAD, MCSG,PSI, structural genomics, PR structure initiative; 2.01A {Porphyromonas gingivalis} SCOP: a.287.1.2
Probab=49.70 E-value=47 Score=21.05 Aligned_cols=52 Identities=17% Similarity=0.244 Sum_probs=32.2
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCC-CCHHHHHHhhhcccccCCCCCHHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCP-ETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLS 72 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcP-et~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~ 72 (78)
+..+++.+.++|+++.+...+...+- ....++-.++..+ +.+....+|+.+-
T Consensus 40 ~~~l~~~l~~lgl~~~e~~~l~~~~~~~~~~~~~~~~~~~-------~~e~r~~ll~~L~ 92 (133)
T 2h5n_A 40 IAVMTREFMRFGILQDQVDLLLKASDSIEASQAVALIARM-------DEERKKYVASYLG 92 (133)
T ss_dssp HHHHHHHHGGGTCCHHHHHHHHHHHTTSCHHHHHHHHHTS-------CHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHHHhccHHHHHHHHHcC-------CHHHHHHHHHHHH
Confidence 45677888888899888665555442 3555665555332 5666666666543
No 11
>2hjm_A Hypothetical protein PF1176; singleton protein PF1176, structural genomics, secsg, PSI, P structure initiative; 2.90A {Pyrococcus furiosus}
Probab=46.97 E-value=11 Score=24.63 Aligned_cols=29 Identities=21% Similarity=0.449 Sum_probs=24.0
Q ss_pred HHHhhhcccccCCCCCHHHHHHHHHHHHhhhh
Q 042488 45 AIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKK 76 (78)
Q Consensus 45 AkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r~ 76 (78)
+--++-+|+.| |+|+.++.+|+.+++.|.
T Consensus 56 lEGiLttLK~K---y~de~i~~Lle~V~~~R~ 84 (103)
T 2hjm_A 56 LEGILTTLKMK---YSNEKIETLLNEVKTARE 84 (103)
T ss_dssp HHHHHHHHTTT---CCCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH---hccHHHHHHHHHHHHHHH
Confidence 34578899876 599999999999998774
No 12
>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=46.47 E-value=55 Score=23.54 Aligned_cols=55 Identities=15% Similarity=0.032 Sum_probs=36.2
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCC----CHHHHHHhhhcccccCCCCCHHHHHHHHH
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPE----TVEEAIAMVPSIKTRGRAHDDEAIEKMLN 69 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPe----t~dEAkaLIPSL~~k~r~~~de~Lq~ILd 69 (78)
+...|...|...|+++-+++.|..-||. +++..+.-+--|..- .+ +++++.+++.
T Consensus 50 ~~~~vl~fL~~~G~s~~~i~~iv~~~P~lL~~~~~~l~p~l~fL~~l-G~-s~~~i~~il~ 108 (343)
T 3mva_O 50 NEQDLKMFLLSKGASKEVIASIISRYPRAITRTPENLSKRWDLWRKI-VT-SDLEIVNILE 108 (343)
T ss_dssp CHHHHHHHHHHTTCCHHHHHHHHHHCGGGGGCCHHHHHHHHHHHTTT-SS-CHHHHHHHHH
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHhCcHHHhCCHHHHHHHHHHHHHc-CC-CHHHHHHHHH
Confidence 4567788888889998888888888876 554444333333321 23 7777777653
No 13
>2p1h_A APAF-1, apoptotic protease-activating factor 1; folding, unfolding, apoptosis; 1.59A {Homo sapiens} SCOP: a.77.1.3 PDB: 1cww_A 1c15_A 1cy5_A 3ygs_C 2ygs_A
Probab=42.56 E-value=50 Score=19.33 Aligned_cols=58 Identities=17% Similarity=0.181 Sum_probs=42.9
Q ss_pred hccHHHHHHHHhhC-CCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHh
Q 042488 11 ELKIGDVFRILSRY-QLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~-~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~ 73 (78)
.+.+..|...|-.. =|++.|...|.+- +...+-|+.|+-.+.+| .+...+..++.|..
T Consensus 21 ~l~v~~lld~L~~~~vlt~~~~e~I~~~-~t~~~kar~Lld~l~~k----G~~af~~F~~aL~~ 79 (94)
T 2p1h_A 21 DIKTSYIMDHMISDGFLTISEEEKVRNE-PTQQQRAAMLIKMILKK----DNDSYVSFYNALLH 79 (94)
T ss_dssp HCCHHHHHHHHHHHTSSCHHHHHHHHTS-SSHHHHHHHHHHHHTTS----CHHHHHHHHHHHHH
T ss_pred HCCHHHHHHHHHHCCCCCHHHHHHHHcC-CChHHHHHHHHHHHHHc----CHHHHHHHHHHHHH
Confidence 46677777777654 5888888888774 88899999999999865 55666666666643
No 14
>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=40.02 E-value=34 Score=18.90 Aligned_cols=33 Identities=6% Similarity=-0.014 Sum_probs=27.1
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
-++-..|+.+-.+.|++.-|.|...++.+.|+-
T Consensus 10 ~~~g~~lr~~R~~~gltq~elA~~~gvs~~tis 42 (73)
T 3fmy_A 10 TVAPEFIVKVRKKLSLTQKEASEIFGGGVNAFS 42 (73)
T ss_dssp CCCHHHHHHHHHHTTCCHHHHHHHHCSCTTHHH
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHhCcCHHHHH
Confidence 356677888878899999999999999887754
No 15
>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=37.72 E-value=34 Score=20.83 Aligned_cols=33 Identities=6% Similarity=-0.014 Sum_probs=27.2
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
.++-..++.+-.+.||++-|.|.+.++.+.|+-
T Consensus 70 ~~~~~~l~~~R~~~glsq~~la~~~g~s~~~i~ 102 (133)
T 3o9x_A 70 TVAPEFIVKVRKKLSLTQKEASEIFGGGVNAFS 102 (133)
T ss_dssp TCCHHHHHHHHHHTTCCHHHHHHHHCSCTTHHH
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHCCCHHHHH
Confidence 345567888888899999999999999988754
No 16
>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=36.62 E-value=20 Score=18.78 Aligned_cols=29 Identities=17% Similarity=0.083 Sum_probs=22.6
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
..++......|++.-+.|...++.+.++-
T Consensus 4 ~~l~~~r~~~glsq~~lA~~~gis~~~i~ 32 (69)
T 1r69_A 4 SRVKSKRIQLGLNQAELAQKVGTTQQSIE 32 (69)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTSCHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHH
Confidence 45677777889999999998888766653
No 17
>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=36.61 E-value=18 Score=20.41 Aligned_cols=52 Identities=13% Similarity=0.140 Sum_probs=33.8
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
-..++..+.+.|+++-|.|...++.+.++-.-.. .+....+-+.+.+|.+.+
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 3567788888999999999999988766543321 111012556666666543
No 18
>2nz7_A NOD1, caspase recruitment domain-containing protein 4, CARD4; helix swapped, disulfide bond, apoptosis; 1.90A {Homo sapiens} PDB: 2nsn_A
Probab=35.47 E-value=79 Score=19.54 Aligned_cols=50 Identities=14% Similarity=0.245 Sum_probs=35.8
Q ss_pred HHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHh
Q 042488 19 RILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 19 ~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~ 73 (78)
.+|.+.-|++.| .-|..=+|...+-|+.||-++..| .+.--+..+.-|+.
T Consensus 35 ~LL~~~VL~~ee-~~I~~~~~T~~~kaR~Lld~v~~K----G~~A~~~F~~~L~e 84 (98)
T 2nz7_A 35 NLLKNDYFSAED-AEIVCACPTQPDKVRKILDLVQSK----GEEVSEFFLYLLQQ 84 (98)
T ss_dssp HHHHTTSSCHHH-HHHHHTCCSHHHHHHHHHHHHHHH----CHHHHHHHHHHHHH
T ss_pred HHHHcCCCCHHH-HHHHccCCCcHHHHHHHHHHHHHH----hHHHHHHHHHHHHH
Confidence 344456789999 888766799999999999999876 44444544444443
No 19
>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=34.08 E-value=23 Score=18.63 Aligned_cols=29 Identities=7% Similarity=0.131 Sum_probs=22.9
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
..++......|++.-+.|...++.+.++-
T Consensus 6 ~~l~~~r~~~glsq~~lA~~~gis~~~i~ 34 (71)
T 1zug_A 6 ERLKKRRIALKMTQTELATKAGVKQQSIQ 34 (71)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTSCHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHH
Confidence 46777777889999999998888776653
No 20
>3oq9_A Tumor necrosis factor receptor superfamily member; apoptosis, DISC, FAS; 6.80A {Mus musculus}
Probab=31.33 E-value=44 Score=20.42 Aligned_cols=63 Identities=10% Similarity=0.150 Sum_probs=43.6
Q ss_pred hhhccHHHHHHHHhhCCCChHHHHHHhhcCCCCH-HHHHHhhhcccccCCCCCHHHHHHHHHHHHh
Q 042488 9 AAELKIGDVFRILSRYQLAEFELCVLGNLCPETV-EEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 9 ~~~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~-dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~ 73 (78)
|-.+.+.++++...+.||++-++-.|.+=.|.+. |-...++-.-..+ .-.+..++.++..|.+
T Consensus 7 a~~~~~~~wK~~~R~LGlse~~Id~I~~~~~~d~~Eq~~qmL~~W~~~--~g~~a~~~~Li~~Lr~ 70 (86)
T 3oq9_A 7 AEDMTIQEAKKFARENNIKEGKIDEIMHDSIQDTAEQKVQLLLCWYQS--HGKSDAYQDLIKGLKK 70 (86)
T ss_dssp HHHSCHHHHHHHHHTTTSCHHHHHHHHHTCTTCCTTHHHHHHHHHHHH--SCSSSHHHHHHHHHHH
T ss_pred HHHcCHHHHHHHHHHcCCCHhHHHHHHHhCCCChHHHHHHHHHHHHHH--hCcchHHHHHHHHHHH
Confidence 4567889999999999999999999999999865 4455555544322 1123455556555554
No 21
>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=30.05 E-value=25 Score=18.14 Aligned_cols=48 Identities=17% Similarity=0.125 Sum_probs=30.1
Q ss_pred HHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 17 VFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 17 Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
++......|++.-+.|...++.+.|+-.-. ..+ +.++.+.+.+|.+.+
T Consensus 6 l~~~r~~~g~s~~~lA~~~gis~~~i~~~e------~g~-~~~~~~~l~~i~~~l 53 (66)
T 2xi8_A 6 LKLIREKKKISQSELAALLEVSRQTINGIE------KNK-YNPSLQLALKIAYYL 53 (66)
T ss_dssp HHHHHHHTTCCHHHHHHHHTSCHHHHHHHH------TTS-CCCCHHHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHH------cCC-CCCCHHHHHHHHHHH
Confidence 566677789999999998888766553321 111 122566666665543
No 22
>2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A {Bacillus caldolyticus} SCOP: a.35.1.3
Probab=29.36 E-value=31 Score=18.49 Aligned_cols=30 Identities=17% Similarity=0.128 Sum_probs=23.2
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
...++......|++..+.|...++.+.++-
T Consensus 12 ~~~l~~~r~~~glsq~~lA~~~gis~~~i~ 41 (77)
T 2b5a_A 12 GRTLKKIRTQKGVSQEELADLAGLHRTYIS 41 (77)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCCCHHHHH
Confidence 456777777789999999999888766553
No 23
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=29.10 E-value=31 Score=18.23 Aligned_cols=51 Identities=18% Similarity=0.075 Sum_probs=32.5
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
...++......|++..+.|....+.+.++-... ..+ +.++.+.+.+|.+.+
T Consensus 15 ~~~l~~~r~~~g~s~~~lA~~~gis~~~i~~~e------~g~-~~~~~~~l~~l~~~l 65 (74)
T 1y7y_A 15 GQRLRELRTAKGLSQETLAFLSGLDRSYVGGVE------RGQ-RNVSLVNILKLATAL 65 (74)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHH------TTC-SCCBHHHHHHHHHHT
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHH------CCC-CCCCHHHHHHHHHHh
Confidence 356677777789999999999888766553321 111 223566666665543
No 24
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1}
Probab=28.98 E-value=31 Score=18.50 Aligned_cols=51 Identities=18% Similarity=0.274 Sum_probs=32.7
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
..++......|++.-+.|...++.+.++-... ..+...++.+.+.+|.+.+
T Consensus 10 ~~l~~~r~~~g~sq~~lA~~~gis~~~i~~~e------~g~~~~~~~~~l~~ia~~l 60 (78)
T 3b7h_A 10 EHLMELITQQNLTINRVATLAGLNQSTVNAMF------EGRSKRPTITTIRKVCGTL 60 (78)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHH------CTTCCCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHH------cCCCCCCCHHHHHHHHHHc
Confidence 46677777889999999999888776543321 1111023667777766544
No 25
>3t76_A VANU, transcriptional regulator vanug; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.12A {Enterococcus faecalis} PDB: 3t75_A* 3tyr_A* 3tys_A*
Probab=28.21 E-value=31 Score=20.50 Aligned_cols=54 Identities=9% Similarity=0.064 Sum_probs=38.6
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHH
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLS 72 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~ 72 (78)
......++.++.+.|+++.|.|....+.+.|+---.. |+.++-+.|.+|.+.+.
T Consensus 23 ~i~~~rLk~lR~~~glTq~eLA~~~GiS~~tis~iE~--------G~~~s~~~l~kIa~~L~ 76 (88)
T 3t76_A 23 RVSYNKLWKLLIDRDMKKGELREAVGVSKSTFAKLGK--------NENVSLTVLLAICEYLN 76 (88)
T ss_dssp EEECHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHT--------TCCCCHHHHHHHHHHHT
T ss_pred cHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHc--------CCCcCHHHHHHHHHHHC
Confidence 3456789999999999999999999998776543221 12237777777776653
No 26
>3ezq_A Tumor necrosis factor receptor superfamily member; apoptosis, DISC, FAS, membrane,receptor, transmembrane; 2.73A {Homo sapiens} SCOP: a.77.1.2 PDB: 1ddf_A
Probab=28.19 E-value=1.1e+02 Score=19.79 Aligned_cols=64 Identities=14% Similarity=0.199 Sum_probs=45.9
Q ss_pred hhhccHHHHHHHHhhCCCChHHHHHHhhcCCCCHHH-HHHhhhcccccCCCCCHHHHHHHHHHHHhh
Q 042488 9 AAELKIGDVFRILSRYQLAEFELCVLGNLCPETVEE-AIAMVPSIKTRGRAHDDEAIEKMLNDLSLI 74 (78)
Q Consensus 9 ~~~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dE-AkaLIPSL~~k~r~~~de~Lq~ILd~L~~~ 74 (78)
|-.+.+.++++...+.||++-++-.|.+=.|.+..| ...++-.-..+ .-....++.++..|.+.
T Consensus 15 ae~m~~~~wK~laR~LGlse~~Id~I~~d~~~d~~Eq~~qlLr~W~~~--~G~~aa~~~Li~aLr~~ 79 (115)
T 3ezq_A 15 AGVMTLSQVKGFVRKNGVNEAKIDEIKNDNVQDTAEQKVQLLRNWHQL--HGKKEAYDTLIKDLKKA 79 (115)
T ss_dssp HHTSCHHHHHHHHHHTTCCHHHHHHHHHHCSSCHHHHHHHHHHHHHTT--SCHHHHHHHHHHHHHHH
T ss_pred HHHcCHHHHHHHHHHcCCCHhhHHHHHHcCCCChHHHHHHHHHHHHHH--hCcccHHHHHHHHHHHc
Confidence 446788999999999999999999999999997755 44555544422 21245666676666653
No 27
>2r1j_L Repressor protein C2; protein-DNA complex, helix-turn-helix, DNA-binding, transcription, transcription regulation; 1.53A {Enterobacteria phage P22} SCOP: a.35.1.2 PDB: 3jxb_C 3jxc_L 3jxd_L
Probab=28.04 E-value=27 Score=18.14 Aligned_cols=29 Identities=3% Similarity=0.033 Sum_probs=22.7
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
..++......|++.-+.|...++.|.++-
T Consensus 8 ~~l~~~r~~~g~s~~~lA~~~gis~~~i~ 36 (68)
T 2r1j_L 8 ERIRARRKKLKIRQAALGKMVGVSNVAIS 36 (68)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHTSCHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCCCHHHHH
Confidence 45677777789999999998888776543
No 28
>1neq_A DNA-binding protein NER; NMR {Enterobacteria phage MU} SCOP: a.35.1.2 PDB: 1ner_A
Probab=27.54 E-value=30 Score=19.93 Aligned_cols=35 Identities=23% Similarity=0.211 Sum_probs=29.9
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHH
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLCPETVEEA 45 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEA 45 (78)
.....+++..|.+.|++..+.|..+.+.+.|+--+
T Consensus 8 ~~~~~ri~~~l~~~glT~~~LA~~~Gvs~stls~~ 42 (74)
T 1neq_A 8 DWHRADVIAGLKKRKLSLSALSRQFGYAPTTLANA 42 (74)
T ss_dssp SCCHHHHHHHHHTTSCCHHHHHHHHSSCHHHHHHT
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHH
Confidence 45678889999989999999999999988887755
No 29
>3kz3_A Repressor protein CI; five helix bundle, DNA-binding, transcription, transcription regulation; 1.64A {Enterobacteria phage lambda}
Probab=27.34 E-value=33 Score=18.96 Aligned_cols=50 Identities=8% Similarity=-0.109 Sum_probs=30.8
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
..++....+.|++..|.|...++.+.++---. +.+ +.++.+.+.+|.+.+
T Consensus 15 ~~l~~~r~~~gltq~~lA~~~gvs~~~is~~e------~g~-~~~~~~~~~~ia~~l 64 (80)
T 3kz3_A 15 AIWEKKKNELGLSYESVADKMGMGQSAVAALF------NGI-NALNAYNAALLAKIL 64 (80)
T ss_dssp HHHHHHHHHHTCCHHHHHHHTTSCHHHHHHHH------TTS-SCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHhCcCHHHHHHHH------cCC-CCCCHHHHHHHHHHh
Confidence 44566666789999999999988765543211 111 222566666666554
No 30
>3s8q_A R-M controller protein; protein-DNA complex, helix-turn-helix; HET: DNA; 2.10A {Enterobacter SP} SCOP: a.35.1.0 PDB: 3clc_A* 3ufd_A*
Probab=27.17 E-value=35 Score=18.76 Aligned_cols=29 Identities=14% Similarity=0.002 Sum_probs=22.2
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETV 42 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~ 42 (78)
-..++......|++.-+.|...++.+.++
T Consensus 13 g~~lk~~R~~~glsq~~lA~~~gis~~~i 41 (82)
T 3s8q_A 13 SFVIKKIRLEKGMTQEDLAYKSNLDRTYI 41 (82)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHhCcCHHHH
Confidence 34566666778999999999988876553
No 31
>2ef8_A C.ECOT38IS, putative transcription factor; helix-turn-helix, DNA binding protein, transcription regulator; HET: CME; 1.95A {Enterobacteria phage P2}
Probab=26.41 E-value=37 Score=18.48 Aligned_cols=52 Identities=13% Similarity=0.146 Sum_probs=32.9
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHh
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~ 73 (78)
..++......|++.-|.|...++.+.++-.-. ..+ +.++-+.+.+++..|..
T Consensus 13 ~~l~~~r~~~glsq~~lA~~~gis~~~i~~~e------~g~-~~~~~~~l~~~~~~l~~ 64 (84)
T 2ef8_A 13 QLLTKLRKEASLSQSELAIFLGLSQSDISKIE------SFE-RRLDALELFELLEVVAS 64 (84)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHH------TTS-SCCBHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHH------cCC-CCCCHHHHHHHHHHHcc
Confidence 45677777789999999999988775543221 111 22255666666666543
No 32
>1x57_A Endothelial differentiation-related factor 1; HMBF1alpha, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.35.1.12
Probab=26.37 E-value=24 Score=20.00 Aligned_cols=51 Identities=12% Similarity=0.079 Sum_probs=33.3
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
...++.+....|++..|.|...++.+.++-.-.. .+ +.++.+.+.+|.+.+
T Consensus 15 ~~~l~~~r~~~glsq~~lA~~~gis~~~is~~e~------g~-~~p~~~~l~~la~~l 65 (91)
T 1x57_A 15 GKVIQQGRQSKGLTQKDLATKINEKPQVIADYES------GR-AIPNNQVLGKIERAI 65 (91)
T ss_dssp HHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHH------TC-SCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHc------CC-CCCCHHHHHHHHHHH
Confidence 4567777777899999999999887765433221 11 223666677776654
No 33
>3bq3_A Defective in cullin neddylation protein 1; ubiquitin, ubiquitination,SCF,cullin, E3 E2, cell cycle, protein degradation, ligase; 1.90A {Saccharomyces cerevisiae} PDB: 2is9_A* 3o2p_A 3o6b_A 3tdi_B 2l4e_A 2l4f_A
Probab=26.18 E-value=72 Score=23.21 Aligned_cols=31 Identities=10% Similarity=0.021 Sum_probs=26.2
Q ss_pred CCCChHH-HHHHhhcCCCCHHHHHHhhhcccc
Q 042488 24 YQLAEFE-LCVLGNLCPETVEEAIAMVPSIKT 54 (78)
Q Consensus 24 ~~L~~fE-~A~LaNLcPet~dEAkaLIPSL~~ 54 (78)
+.+++.| +.-+.+|.++|.+..|+.||.|..
T Consensus 124 g~ftr~ef~~G~~~l~~dsi~~lk~~l~~l~~ 155 (270)
T 3bq3_A 124 EPLKREDFLSTWFMQGCSTISDMQECIKTLDV 155 (270)
T ss_dssp SCCCHHHHHHHHHHTTCCSHHHHHHHHHHHHH
T ss_pred ceeeHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence 4577777 777889999999999999999963
No 34
>2wiu_B HTH-type transcriptional regulator HIPB; transferase transcription complex, serine kinase, DNA-bindin mercury derivative, repressor; 2.35A {Escherichia coli} PDB: 3dnv_B* 3dnw_B* 3hzi_B*
Probab=25.90 E-value=38 Score=18.67 Aligned_cols=50 Identities=12% Similarity=0.040 Sum_probs=32.1
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
..++......|++.-+.|....+.+.++-.-.. .+... +.+.+.+|.+.+
T Consensus 15 ~~l~~~r~~~glsq~~lA~~~gis~~~i~~~e~------g~~~~-~~~~l~~i~~~l 64 (88)
T 2wiu_B 15 NAMKLVRQQNGWTQSELAKKIGIKQATISNFEN------NPDNT-TLTTFFKILQSL 64 (88)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHH------CGGGC-BHHHHHHHHHHT
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHc------CCCCC-CHHHHHHHHHHh
Confidence 466777777899999999999887776543322 11122 555666665543
No 35
>1adr_A P22 C2 repressor; transcription regulation; NMR {Enterobacteria phage P22} SCOP: a.35.1.2
Probab=25.85 E-value=30 Score=18.39 Aligned_cols=49 Identities=4% Similarity=0.055 Sum_probs=30.6
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLND 70 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~ 70 (78)
..++......|++.-+.|...++.+.++--.. ..+ +..+.+.+.+|.+.
T Consensus 8 ~~l~~~r~~~gls~~~lA~~~gis~~~i~~~e------~g~-~~~~~~~l~~ia~~ 56 (76)
T 1adr_A 8 ERIRARRKKLKIRQAALGKMVGVSNVAISQWE------RSE-TEPNGENLLALSKA 56 (76)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHH------TTS-SCCCHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHH------cCC-CCCCHHHHHHHHHH
Confidence 45677777789999999998888765543221 111 22256666666554
No 36
>2jr2_A UPF0352 protein CPS_2611; dimer, all alpha helix, homodimer, structural genomics, PSI, structure initiative; NMR {Colwellia psychrerythraea} SCOP: a.284.1.1 PDB: 2ota_A
Probab=25.44 E-value=50 Score=20.45 Aligned_cols=15 Identities=33% Similarity=0.490 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHh
Q 042488 59 HDDEAIEKMLNDLSL 73 (78)
Q Consensus 59 ~~de~Lq~ILd~L~~ 73 (78)
|+|+++++||.+|-.
T Consensus 7 Ysd~qvE~ll~eli~ 21 (76)
T 2jr2_A 7 YSNERVEKIIQDLLD 21 (76)
T ss_dssp SCHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 499999999998754
No 37
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.65A {Bacteroides fragilis}
Probab=25.39 E-value=33 Score=18.29 Aligned_cols=50 Identities=12% Similarity=0.019 Sum_probs=32.8
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
..++......|++..+.|...++.|.++-... ..+ +.++.+.+.+|.+.+
T Consensus 13 ~~l~~~r~~~g~s~~~lA~~~gis~~~i~~~e------~g~-~~~~~~~l~~ia~~l 62 (76)
T 3bs3_A 13 NRIKVVLAEKQRTNRWLAEQMGKSENTISRWC------SNK-SQPSLDMLVKVAELL 62 (76)
T ss_dssp BCHHHHHHHTTCCHHHHHHHHTCCHHHHHHHH------TTS-SCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHH------cCC-CCCCHHHHHHHHHHH
Confidence 34677777889999999999988776654322 111 223667777766654
No 38
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural genomics, PSI-2, protein structure initiative; NMR {Eubacterium rectale atcc 33656}
Probab=24.41 E-value=38 Score=19.37 Aligned_cols=51 Identities=6% Similarity=0.056 Sum_probs=32.7
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
...++.+....|++.-+.|....+.+.|+-.- .+..+..+-+.+.+|.+.+
T Consensus 11 ~~~lk~~r~~~glsq~~lA~~~gis~~~is~~-------e~G~~~p~~~~l~~ia~~l 61 (94)
T 2kpj_A 11 SENLNSYIAKSEKTQLEIAKSIGVSPQTFNTW-------CKGIAIPRMGKVQALADYF 61 (94)
T ss_dssp HHHHHHHHTTSSSCHHHHHHHHTCCHHHHHHH-------HTTSCCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHH-------HhCCCCCCHHHHHHHHHHH
Confidence 45677777788999999999988876654322 1111222566666666544
No 39
>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=24.03 E-value=1.3e+02 Score=18.27 Aligned_cols=45 Identities=18% Similarity=0.191 Sum_probs=32.1
Q ss_pred CCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHH
Q 042488 25 QLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLN 69 (78)
Q Consensus 25 ~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd 69 (78)
.+++..+..|+..++.++-++..++-.+...++.++.+++++++.
T Consensus 180 ~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~~~I~~~~v~~~~~ 224 (226)
T 2chg_A 180 KITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224 (226)
T ss_dssp CBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSCBCHHHHHHHHH
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCceecHHHHHHHhc
Confidence 466666778888999999888887766543223347888888765
No 40
>3omt_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.65A {Cytophaga hutchinsonii}
Probab=24.01 E-value=27 Score=18.86 Aligned_cols=50 Identities=12% Similarity=0.007 Sum_probs=32.5
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
..++.++...|++.-|.|...++.+.|+---.. .+ +.++.+.+.+|.+.+
T Consensus 11 ~~l~~~r~~~glsq~~lA~~~gis~~~is~~e~------g~-~~~~~~~l~~ia~~l 60 (73)
T 3omt_A 11 NRLKSVLAEKGKTNLWLTETLDKNKTTVSKWCT------ND-VQPSLETLFDIAEAL 60 (73)
T ss_dssp BCHHHHHHHHTCCHHHHHHHTTCCHHHHHHHHT------TS-SCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHc------CC-CCCCHHHHHHHHHHH
Confidence 356777778899999999988887666443221 11 123666777766654
No 41
>2juz_A UPF0352 protein HI0840; homodimer, helix, structural genomics, PSI-2, protein structure initiative; NMR {Haemophilus influenzae} SCOP: a.284.1.1
Probab=23.94 E-value=54 Score=20.45 Aligned_cols=15 Identities=20% Similarity=0.401 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHh
Q 042488 59 HDDEAIEKMLNDLSL 73 (78)
Q Consensus 59 ~~de~Lq~ILd~L~~ 73 (78)
|+|+++++||.+|-.
T Consensus 7 Ysd~qvE~ll~eli~ 21 (80)
T 2juz_A 7 YSDAQLSAIVNDMIA 21 (80)
T ss_dssp CCHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 499999999998754
No 42
>2juw_A UPF0352 protein SO_2176; homodimer, helix, dimer, all alpha, northeast structural GEN consortium, NESG, structural genomics; NMR {Shewanella oneidensis} SCOP: a.284.1.1 PDB: 2qti_A
Probab=23.92 E-value=55 Score=20.40 Aligned_cols=15 Identities=7% Similarity=0.390 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHh
Q 042488 59 HDDEAIEKMLNDLSL 73 (78)
Q Consensus 59 ~~de~Lq~ILd~L~~ 73 (78)
|+|+++++||.+|-.
T Consensus 7 Ysd~qvE~ll~eli~ 21 (80)
T 2juw_A 7 YSNTQVESLIAEILV 21 (80)
T ss_dssp SCHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 499999999998754
No 43
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=23.91 E-value=85 Score=18.56 Aligned_cols=59 Identities=10% Similarity=0.139 Sum_probs=38.7
Q ss_pred cHHHHHHHHhh-CCCC------hHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhh
Q 042488 13 KIGDVFRILSR-YQLA------EFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 13 ~i~~Vr~~L~~-~~L~------~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
.+.+.|.-+.+ .++. +--+..||...|.|.++...+ |-+..+ . -+..-+.+|+.|..++
T Consensus 18 ~L~~wR~~~A~~~~vpp~~If~D~tL~eiA~~~P~t~~eL~~i-~Gvg~~--k-~~~yG~~~l~~I~~~~ 83 (89)
T 1wud_A 18 KLRKLRKSIADESNVPPYVVFNDATLIEMAEQMPITASEMLSV-NGVGMR--K-LERFGKPFMALIRAHV 83 (89)
T ss_dssp HHHHHHHHHHHHHTSCHHHHCCHHHHHHHHHHCCCSHHHHHTS-TTCCHH--H-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCcceeeCHHHHHHHHHhCCCCHHHHhhC-CCCCHH--H-HHHHHHHHHHHHHHHH
Confidence 45566666665 3544 445888999999999998875 555421 1 2334567788777764
No 44
>3p04_A Uncharacterized BCR; SEPF homolog, DUF552, PSI-biology, NESG, structural genomics structure initiative; 2.20A {Corynebacterium glutamicum}
Probab=23.54 E-value=60 Score=20.00 Aligned_cols=38 Identities=8% Similarity=0.031 Sum_probs=30.1
Q ss_pred hhcCCCCHHHHHHhhhccccc-------CCCCCHHHHHHHHHHHHh
Q 042488 35 GNLCPETVEEAIAMVPSIKTR-------GRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 35 aNLcPet~dEAkaLIPSL~~k-------~r~~~de~Lq~ILd~L~~ 73 (78)
.-+-|.+.+||+.+.-.|+.+ ... ++++-|+|+|=++-
T Consensus 8 vv~~P~sy~Da~~I~d~Lr~~~~VvvNL~~l-d~~~AqRivDF~sG 52 (87)
T 3p04_A 8 VPVELHSFEDAQVIGGAFRDGDAVVFDMSLL-SREEARRIVDFAAG 52 (87)
T ss_dssp EEEECSSGGGHHHHHHHHHTTCCEEEECTTS-CHHHHHHHHHHHHH
T ss_pred EEEecCcHHHHHHHHHHHHCCCEEEEECCCC-CHHHHHHHHHHhcc
Confidence 346799999999999988764 246 88999999997763
No 45
>2k9q_A Uncharacterized protein; all helix, helix-turn-helix, plasmid, structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides thetaiotaomicron}
Probab=23.11 E-value=36 Score=18.57 Aligned_cols=29 Identities=7% Similarity=-0.040 Sum_probs=22.1
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
..++.+..+.|++..+.|...++.+.++-
T Consensus 5 ~~lk~~r~~~glsq~~lA~~~gis~~~i~ 33 (77)
T 2k9q_A 5 NELKVERIRLSLTAKSVAEEMGISRQQLC 33 (77)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHTSCHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHH
Confidence 35666777789999999988888766543
No 46
>2jpq_A UPF0352 protein VP2129; dimer, all alpha, homodimer, structural genomics, PSI-2, protein structure initiative; NMR {Vibrio parahaemolyticus} SCOP: a.284.1.1
Probab=23.07 E-value=58 Score=20.45 Aligned_cols=15 Identities=40% Similarity=0.702 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHh
Q 042488 59 HDDEAIEKMLNDLSL 73 (78)
Q Consensus 59 ~~de~Lq~ILd~L~~ 73 (78)
|+|+++++||.+|-.
T Consensus 7 Ysd~qvE~ll~eli~ 21 (83)
T 2jpq_A 7 YTDEQVEKILAEVAL 21 (83)
T ss_dssp SCHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 499999999998754
No 47
>2jrx_A UPF0352 protein YEJL; homodimer, alpha helix, structural genomics, PSI-2, protein initiative, northeast structural genomics consortium, NESG; NMR {Escherichia coli} SCOP: a.284.1.1
Probab=23.00 E-value=57 Score=20.48 Aligned_cols=15 Identities=33% Similarity=0.505 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHh
Q 042488 59 HDDEAIEKMLNDLSL 73 (78)
Q Consensus 59 ~~de~Lq~ILd~L~~ 73 (78)
|+|+++++||.+|-.
T Consensus 7 Ysd~qvE~ll~eli~ 21 (83)
T 2jrx_A 7 YSDEQVEQLLAELLN 21 (83)
T ss_dssp TTHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 499999999998754
No 48
>2zxy_A Cytochrome C552, cytochrome C555; heme protein, oxygen binding, transport protein; HET: HEC; 1.15A {Aquifex aeolicus}
Probab=22.53 E-value=98 Score=16.54 Aligned_cols=27 Identities=11% Similarity=0.067 Sum_probs=19.3
Q ss_pred HHhhhcc---cccCCCCCHHHHHHHHHHHHhhh
Q 042488 46 IAMVPSI---KTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 46 kaLIPSL---~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
....|+. .. .. +++++..|+.=|.+++
T Consensus 58 ~~~Mp~~~~~~~--~l-s~~ei~~l~~yl~sl~ 87 (87)
T 2zxy_A 58 EAIMKPQLTMLK--GL-SDAELKALADFILSHK 87 (87)
T ss_dssp HHHHGGGGGGGG--GC-CHHHHHHHHHHHHTC-
T ss_pred CCCCCCcccccc--CC-CHHHHHHHHHHHHhcC
Confidence 3567876 32 35 9999999998887653
No 49
>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Homo sapiens}
Probab=22.49 E-value=1e+02 Score=19.57 Aligned_cols=25 Identities=32% Similarity=0.602 Sum_probs=14.7
Q ss_pred hhccHHHHHHHHhhCCCChHHHHHH
Q 042488 10 AELKIGDVFRILSRYQLAEFELCVL 34 (78)
Q Consensus 10 ~~~~i~~Vr~~L~~~~L~~fE~A~L 34 (78)
..+.+.+..++|++++|++.+++.|
T Consensus 41 v~lpv~efn~ll~~~~Ls~~Ql~lI 65 (91)
T 2kz5_A 41 VNLPVDDFNELLARYPLTESQLALV 65 (91)
T ss_dssp HHSCHHHHHHHHHHSCCCHHHHHHH
T ss_pred HHCcHHHHHHHHHHcCCCHHHHHHH
Confidence 3455566666666666666655544
No 50
>2l49_A C protein; P2 bacteriophage, P2 C, direct repeats, DNA-binding protein, binding protein; NMR {Enterobacteria phage P2} PDB: 2xcj_A
Probab=22.36 E-value=45 Score=18.89 Aligned_cols=28 Identities=14% Similarity=0.063 Sum_probs=21.8
Q ss_pred HHHHHHHhhCCCChHHHHHHhhcCCCCH
Q 042488 15 GDVFRILSRYQLAEFELCVLGNLCPETV 42 (78)
Q Consensus 15 ~~Vr~~L~~~~L~~fE~A~LaNLcPet~ 42 (78)
..++.+....|++..+.|...++.+.|+
T Consensus 7 ~~l~~~r~~~gltq~~lA~~~gis~~~i 34 (99)
T 2l49_A 7 EKIVLMRKSEYLSRQQLADLTGVPYGTL 34 (99)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHCCCHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHH
Confidence 4567777778999999998888776554
No 51
>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=22.26 E-value=1.2e+02 Score=18.17 Aligned_cols=46 Identities=20% Similarity=0.055 Sum_probs=24.5
Q ss_pred CChHHHHHHh-h-c-----CCCCHHHHHHhhhccccc--CCCCCHHHHHHHHHHHH
Q 042488 26 LAEFELCVLG-N-L-----CPETVEEAIAMVPSIKTR--GRAHDDEAIEKMLNDLS 72 (78)
Q Consensus 26 L~~fE~A~La-N-L-----cPet~dEAkaLIPSL~~k--~r~~~de~Lq~ILd~L~ 72 (78)
++.-|...+. + + .+-|.+|+..+|-.+... |.. +=++.-.++..+.
T Consensus 29 Is~~EL~~~l~~~l~~~lg~~~~~~ev~~~i~~~D~dgDG~I-df~EF~~~~~~~~ 83 (101)
T 3nso_A 29 LCQAELKELLQKELATWTPTEFRECDYNKFMSVLDTNKDCEV-DFVEYVRSLACLC 83 (101)
T ss_dssp ECHHHHHHHHHHHTTTCCCCTTCHHHHHHHHHHHHHCCCSCE-EHHHHHHHHHHHH
T ss_pred ECHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHhCCCCCCCC-cHHHHHHHHHHHH
Confidence 7777844433 3 2 244677777777666422 233 4455544444443
No 52
>2ewt_A BLDD, putative DNA-binding protein; the DNA-binding domain of BLDD; 1.81A {Streptomyces coelicolor}
Probab=22.24 E-value=47 Score=17.44 Aligned_cols=51 Identities=10% Similarity=-0.054 Sum_probs=31.5
Q ss_pred HHHHHHHHhhCCCChHHHHHHhh--cCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGN--LCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaN--LcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
-..++......|++.-+.|.... +.+.++-.... .+ +.++-+.+.+|.+.+
T Consensus 10 g~~l~~~r~~~glsq~~lA~~~g~~is~~~i~~~e~------g~-~~~~~~~l~~la~~l 62 (71)
T 2ewt_A 10 GAKLRAIRTQQGLSLHGVEEKSQGRWKAVVVGSYER------GD-RAVTVQRLAELADFY 62 (71)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHTTTSSCHHHHHHHHH------TC-SCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCCcCCHHHHHHHHC------CC-CCCCHHHHHHHHHHH
Confidence 34667777778999999998888 66655432211 11 223666676666554
No 53
>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=21.83 E-value=1e+02 Score=19.41 Aligned_cols=58 Identities=10% Similarity=0.126 Sum_probs=37.9
Q ss_pred cHHHHHHHHhh-CCCChH------HHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHhhh
Q 042488 13 KIGDVFRILSR-YQLAEF------ELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIK 75 (78)
Q Consensus 13 ~i~~Vr~~L~~-~~L~~f------E~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~~r 75 (78)
.+.+.|.-+.+ .++..| -...||...|.|.+|...+ +-+... + -+.- +.+|+.|..+.
T Consensus 27 ~L~~wR~~~A~~~~vP~y~If~D~tL~emA~~~P~t~~eL~~I-~Gvg~~-K--~~~y-~~~L~~I~~~~ 91 (113)
T 2dgz_A 27 KLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRI-DGVSEG-K--AAML-APLWEVIKHFC 91 (113)
T ss_dssp HHHHHHHHHHHHTTCCHHHHCCHHHHHHHHHHCCCSHHHHHHS-SSCCTT-G--GGGG-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCCCeeECHHHHHHHHHhCCCCHHHHHhC-CCCCHH-H--HHHH-HHHHHHHHHHH
Confidence 45556666665 465544 4788999999999988774 444321 1 2333 78888887764
No 54
>3g5g_A Regulatory protein; transcriptional regulator, helix-turn-helix, restriction- modification, transcription regulator; 2.80A {Enterobacter SP} PDB: 3fya_A
Probab=21.09 E-value=51 Score=19.50 Aligned_cols=30 Identities=13% Similarity=0.005 Sum_probs=22.9
Q ss_pred HHHHHHHHhhCCCChHHHHHHhhcCCCCHH
Q 042488 14 IGDVFRILSRYQLAEFELCVLGNLCPETVE 43 (78)
Q Consensus 14 i~~Vr~~L~~~~L~~fE~A~LaNLcPet~d 43 (78)
-..|+.+....|++.-|.|...++.+.++-
T Consensus 30 g~~lr~~R~~~gltq~elA~~~gis~~~is 59 (99)
T 3g5g_A 30 SFVIKKIRLEKGMTQEDLAYKSNLDRTYIS 59 (99)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHH
Confidence 356777777789999999999888765543
No 55
>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=21.02 E-value=63 Score=20.77 Aligned_cols=28 Identities=11% Similarity=-0.024 Sum_probs=19.6
Q ss_pred hccHHHHHHHHhhCCCChHHHHHHhhcC
Q 042488 11 ELKIGDVFRILSRYQLAEFELCVLGNLC 38 (78)
Q Consensus 11 ~~~i~~Vr~~L~~~~L~~fE~A~LaNLc 38 (78)
-++-..++..|.+.||.+-+.++|-+++
T Consensus 48 ~Isg~elr~~~~~sgLp~~~L~~Iw~la 75 (121)
T 3fia_A 48 FITGDQARNFFFQSGLPQPVLAQIWALA 75 (121)
T ss_dssp BEEHHHHHHHHGGGCCCHHHHHHHHHHH
T ss_pred eECHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3566777777777777777777776654
No 56
>1dgn_A Iceberg (protease inhibitor); antiparallel six-helix bundle, greek-KEY, hydrolase inhibitor; NMR {Homo sapiens} SCOP: a.77.1.3
Probab=20.71 E-value=1.5e+02 Score=17.74 Aligned_cols=50 Identities=8% Similarity=0.169 Sum_probs=36.0
Q ss_pred HHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHHHh
Q 042488 20 ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSL 73 (78)
Q Consensus 20 ~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L~~ 73 (78)
+|...=|+..|...|..--+...|.|+.||-|..+| .+..-+-.+..|.+
T Consensus 28 Ll~~~VLn~~E~e~i~~~~~t~~dkar~LiD~V~~K----G~~A~~~f~~~L~~ 77 (89)
T 1dgn_A 28 LLEDEVISQEDMNKVRDENDTVMDKARVLIDLVTGK----GPKSCCKFIKHLCE 77 (89)
T ss_dssp HHHHTCSCHHHHHHHHTCCSSHHHHHHHHHHHHHHT----CHHHHHHHHHHHHH
T ss_pred HHHHCcccHHHHHHHHhccCchHHHHHHHHHHHHHH----hHHHHHHHHHHHHH
Confidence 344567999999999875566699999999999876 44455544454443
No 57
>2obh_A Centrin-2; DNA repair complex EF hand superfamily protein-peptide compl cycle; 1.80A {Homo sapiens} SCOP: a.39.1.5 PDB: 3kf9_A 1m39_A 2a4j_A 2k2i_A 1oqp_A
Probab=20.45 E-value=1.3e+02 Score=17.67 Aligned_cols=11 Identities=27% Similarity=0.788 Sum_probs=5.1
Q ss_pred CHHHHHHHHHH
Q 042488 60 DDEAIEKMLND 70 (78)
Q Consensus 60 ~de~Lq~ILd~ 70 (78)
++++++.++..
T Consensus 113 ~~~~~~~~~~~ 123 (143)
T 2obh_A 113 TDEELQEMIDE 123 (143)
T ss_dssp CHHHHHHHHHH
T ss_pred CHHHHHHHHHH
Confidence 44444444443
No 58
>1b0n_A Protein (SINR protein); transcription regulator, antagonist, sporulation; 1.90A {Bacillus subtilis} SCOP: a.34.1.1 a.35.1.3 PDB: 2yal_A
Probab=20.41 E-value=54 Score=18.81 Aligned_cols=15 Identities=7% Similarity=0.113 Sum_probs=7.4
Q ss_pred CHHHHHHHHHHHHhh
Q 042488 60 DDEAIEKMLNDLSLI 74 (78)
Q Consensus 60 ~de~Lq~ILd~L~~~ 74 (78)
++++.+.|++.+..+
T Consensus 91 ~~e~~~~i~~~i~~l 105 (111)
T 1b0n_A 91 SKKQFREFLDYQKWR 105 (111)
T ss_dssp CHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHH
Confidence 455555555544443
No 59
>2lmt_A Calmodulin-related protein 97A; spermatogenesis, metal binding protein; NMR {Drosophila melanogaster} PDB: 2lmu_A 2lmv_A
Probab=20.35 E-value=1.2e+02 Score=18.03 Aligned_cols=9 Identities=44% Similarity=0.863 Sum_probs=3.5
Q ss_pred CHHHHHHHH
Q 042488 60 DDEAIEKML 68 (78)
Q Consensus 60 ~de~Lq~IL 68 (78)
++++++.++
T Consensus 117 ~~~e~~~l~ 125 (148)
T 2lmt_A 117 TDEEIDEMI 125 (148)
T ss_dssp CHHHHHHHH
T ss_pred cHHHHHHHH
Confidence 333343333
No 60
>3vk0_A NHTF, transcriptional regulator; HTH motif, XRE transcription factor, DNA binding protein; 1.88A {Neisseria meningitidis}
Probab=20.11 E-value=51 Score=19.60 Aligned_cols=52 Identities=17% Similarity=0.026 Sum_probs=32.5
Q ss_pred cHHHHHHHHhhCCCChHHHHHHhhcCCCCHHHHHHhhhcccccCCCCCHHHHHHHHHHH
Q 042488 13 KIGDVFRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 71 (78)
Q Consensus 13 ~i~~Vr~~L~~~~L~~fE~A~LaNLcPet~dEAkaLIPSL~~k~r~~~de~Lq~ILd~L 71 (78)
--..++.+..+.|++..|.|...++.+.++-- +.+..+..+-+.|.+|.+.+
T Consensus 22 ~g~~lr~~R~~~gltq~elA~~~gis~~~is~-------~E~G~~~p~~~~l~~ia~~l 73 (114)
T 3vk0_A 22 LAYNMRLFRVNKGWSQEELARQCGLDRTYVSA-------VERKRWNIALSNIEKMAAAL 73 (114)
T ss_dssp HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHH-------HTTTCCCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHH-------HHcCCCCCCHHHHHHHHHHh
Confidence 34567777777899999999998886654322 21111223666666665544
Done!