Query 028346
Match_columns 210
No_of_seqs 168 out of 903
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 16:34:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028346.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028346hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3m7n_A Putative uncharacterize 100.0 5.8E-45 2E-49 299.5 18.8 162 8-188 1-165 (179)
2 2nn6_I 3'-5' exoribonuclease C 100.0 3.8E-46 1.3E-50 313.5 11.7 177 7-189 18-195 (209)
3 2nn6_H Exosome complex exonucl 100.0 1E-35 3.5E-40 262.5 6.6 179 5-206 36-220 (308)
4 2ba0_A Archeal exosome RNA bin 100.0 8.2E-32 2.8E-36 229.0 14.8 133 8-162 2-134 (229)
5 2je6_I RRP4, exosome complex R 100.0 1.4E-31 4.7E-36 230.4 15.2 136 7-162 15-153 (251)
6 2z0s_A Probable exosome comple 100.0 2.2E-30 7.7E-35 220.8 12.0 136 8-162 9-146 (235)
7 2nn6_G Exosome complex exonucl 100.0 1.3E-29 4.3E-34 221.9 12.4 138 8-162 39-207 (289)
8 2ja9_A Exosome complex exonucl 99.7 1.2E-17 4.1E-22 136.5 12.5 82 70-162 1-89 (175)
9 2k52_A Uncharacterized protein 99.2 1.3E-10 4.6E-15 82.5 10.2 70 74-157 3-73 (80)
10 2k4k_A GSP13, general stress p 99.2 1.1E-10 3.9E-15 90.5 9.7 73 74-156 5-78 (130)
11 2khi_A 30S ribosomal protein S 99.2 2.6E-10 9E-15 86.5 10.7 87 61-157 15-103 (115)
12 2khj_A 30S ribosomal protein S 99.1 1.2E-10 4E-15 87.5 7.6 77 71-157 26-103 (109)
13 1kl9_A Eukaryotic translation 99.1 2.6E-10 8.8E-15 93.5 10.0 79 72-158 11-90 (182)
14 2eqs_A ATP-dependent RNA helic 99.1 1.7E-10 5.9E-15 86.0 8.1 74 72-156 8-85 (103)
15 2a19_A EIF-2- alpha, eukaryoti 99.1 3.9E-10 1.3E-14 91.8 10.6 77 72-158 11-90 (175)
16 2cqo_A Nucleolar protein of 40 99.1 2.2E-10 7.7E-15 87.6 7.5 77 71-157 17-97 (119)
17 1go3_E DNA-directed RNA polyme 99.0 1.2E-09 3.9E-14 89.2 9.2 82 72-162 77-173 (187)
18 1luz_A Protein K3, protein K2; 99.0 7.8E-10 2.7E-14 80.4 6.6 73 72-156 7-83 (88)
19 3aev_A Translation initiation 98.9 4E-09 1.4E-13 91.5 10.7 77 72-158 7-86 (275)
20 4ayb_E DNA-directed RNA polyme 98.9 1E-08 3.5E-13 83.2 10.4 82 72-162 77-172 (180)
21 1wi5_A RRP5 protein homolog; S 98.9 5.4E-09 1.9E-13 79.5 8.2 86 73-166 18-104 (119)
22 1q8k_A Eukaryotic translation 98.9 6.7E-09 2.3E-13 91.4 9.6 76 73-158 10-88 (308)
23 3cw2_C Translation initiation 98.8 4.7E-09 1.6E-13 90.6 5.3 78 71-158 6-86 (266)
24 2c35_B Human RPB7, DNA-directe 98.7 7.3E-08 2.5E-12 77.6 9.0 83 71-162 76-171 (172)
25 1y14_B B16, RPB7, DNA-directed 98.6 1.6E-07 5.6E-12 75.6 9.1 80 73-162 80-171 (171)
26 3go5_A Multidomain protein wit 98.5 3.6E-07 1.2E-11 79.5 9.7 73 72-162 148-222 (285)
27 3h0g_G DNA-directed RNA polyme 98.5 1.1E-07 3.9E-12 76.7 4.9 81 72-162 80-172 (172)
28 4aid_A Polyribonucleotide nucl 98.5 1.7E-08 5.8E-13 97.7 0.0 75 73-157 634-708 (726)
29 3psi_A Transcription elongatio 98.5 1.9E-07 6.5E-12 94.7 7.3 78 72-159 898-977 (1219)
30 2b8k_G B16, DNA-directed RNA p 98.5 4E-07 1.4E-11 76.2 7.8 83 72-164 79-173 (215)
31 3psf_A Transcription elongatio 98.3 8.9E-08 3E-12 95.7 0.0 79 72-160 901-981 (1030)
32 3cdi_A Polynucleotide phosphor 98.2 1.2E-07 4.3E-12 91.7 0.0 76 72-157 623-698 (723)
33 3bzc_A TEX; helix-turn-helix, 98.2 4.5E-07 1.5E-11 88.5 3.1 76 73-158 651-727 (785)
34 3ayh_B DNA-directed RNA polyme 98.2 5.4E-06 1.8E-10 68.6 8.0 82 72-162 77-199 (203)
35 1e3p_A Guanosine pentaphosphat 98.1 1.5E-07 5.1E-12 91.6 -2.4 76 72-157 663-742 (757)
36 1hh2_P NUSA, N utilization sub 98.0 1.4E-05 4.6E-10 71.3 8.3 71 71-158 129-202 (344)
37 2asb_A Transcription elongatio 98.0 1.1E-05 3.9E-10 68.8 6.7 72 72-159 3-84 (251)
38 1k0r_A NUSA; two component arr 97.8 3.6E-05 1.2E-09 69.0 6.7 72 71-158 125-206 (366)
39 2bx2_L Ribonuclease E, RNAse E 97.5 0.0004 1.4E-08 64.9 9.6 83 62-155 34-126 (517)
40 2ckz_B C25, DNA-directed RNA p 97.4 0.00026 8.7E-09 59.2 6.8 67 71-145 76-154 (218)
41 3go5_A Multidomain protein wit 97.2 0.0029 1E-07 54.8 11.6 68 73-155 66-135 (285)
42 2bh8_A 1B11; transcription, mo 96.3 0.013 4.6E-07 42.8 7.3 41 73-121 58-98 (101)
43 2id0_A Exoribonuclease 2; RNAs 96.2 0.0096 3.3E-07 56.9 7.6 75 74-155 556-643 (644)
44 3d0f_A Penicillin-binding 1 tr 95.5 0.063 2.2E-06 39.2 7.8 60 73-140 30-93 (106)
45 2vnu_D Exosome complex exonucl 95.3 0.022 7.4E-07 55.5 6.0 70 78-155 671-760 (760)
46 2wp8_J Exosome complex exonucl 94.9 0.046 1.6E-06 54.7 7.0 71 77-155 887-977 (977)
47 2rf4_A DNA-directed RNA polyme 89.8 1.1 3.8E-05 36.7 7.7 67 72-146 125-201 (214)
48 3v2d_0 50S ribosomal protein L 89.2 0.57 2E-05 33.2 4.7 58 4-67 24-84 (85)
49 3r8s_W 50S ribosomal protein L 85.9 0.89 3.1E-05 31.6 4.0 58 4-66 15-75 (76)
50 2zjr_T 50S ribosomal protein L 85.9 0.89 3E-05 32.7 4.1 59 4-68 24-85 (91)
51 3h0g_L DNA-directed RNA polyme 81.3 0.2 6.9E-06 33.7 -0.8 30 162-191 20-50 (63)
52 1y71_A Kinase-associated prote 78.7 3.5 0.00012 31.4 5.2 27 74-100 8-43 (130)
53 2ftc_O L27MT, MRP-L27, mitocho 74.1 3.1 0.00011 28.4 3.4 42 4-47 24-68 (69)
54 1twf_L ABC10-alpha, DNA-direct 71.4 0.51 1.7E-05 32.3 -1.1 31 161-191 26-57 (70)
55 2qf4_A Cell shape determining 65.4 16 0.00054 28.7 6.4 59 80-138 47-116 (172)
56 2bh8_A 1B11; transcription, mo 59.6 40 0.0014 23.8 7.2 61 75-146 12-74 (101)
57 3l0o_A Transcription terminati 57.5 5.6 0.00019 36.1 2.7 73 21-103 53-130 (427)
58 2ja9_A Exosome complex exonucl 56.5 12 0.00039 29.7 4.1 29 71-100 49-77 (175)
59 2js4_A UPF0434 protein BB2007; 53.1 7.5 0.00026 26.3 2.2 25 165-189 10-36 (70)
60 3h8z_A FragIle X mental retard 53.1 48 0.0017 24.9 7.0 66 61-142 7-72 (128)
61 1a62_A RHO; transcription term 52.7 9.7 0.00033 28.7 3.0 43 61-103 78-123 (130)
62 2hf1_A Tetraacyldisaccharide-1 51.9 7.5 0.00026 26.2 2.0 25 165-189 10-36 (68)
63 2jr6_A UPF0434 protein NMA0874 51.7 7.6 0.00026 26.2 2.0 25 165-189 10-36 (68)
64 2akl_A PHNA-like protein PA012 50.1 5.7 0.00019 30.4 1.2 26 164-190 28-55 (138)
65 2pk7_A Uncharacterized protein 49.5 6.9 0.00024 26.4 1.5 25 165-189 10-36 (69)
66 2j5u_A MREC protein; bacterial 49.1 36 0.0012 28.3 6.3 59 80-138 109-177 (255)
67 2jny_A Uncharacterized BCR; st 46.0 10 0.00036 25.4 2.0 25 165-189 12-38 (67)
68 3a43_A HYPD, hydrogenase nicke 42.7 7.9 0.00027 29.5 1.1 28 162-190 69-118 (139)
69 3j20_Y 30S ribosomal protein S 41.3 13 0.00044 23.4 1.8 26 163-189 19-47 (50)
70 2dgy_A MGC11102 protein; EIF-1 40.7 1E+02 0.0035 22.4 7.2 58 72-145 10-68 (111)
71 2ba0_A Archeal exosome RNA bin 39.1 79 0.0027 25.7 6.7 32 130-162 54-85 (229)
72 2k52_A Uncharacterized protein 39.0 26 0.0009 23.4 3.2 24 73-96 45-68 (80)
73 3bbo_X Ribosomal protein L27; 38.6 2 6.7E-05 34.9 -3.1 58 4-67 81-141 (198)
74 4ayb_P DNA-directed RNA polyme 38.6 3.7 0.00013 25.9 -1.2 26 165-190 5-34 (48)
75 2gmg_A Hypothetical protein PF 38.5 3.7 0.00013 30.2 -1.4 32 159-190 63-95 (105)
76 2kdx_A HYPA, hydrogenase/ureas 38.5 7.5 0.00026 28.5 0.3 28 161-189 71-100 (119)
77 1yez_A MM1357; MAR30, autostru 36.8 43 0.0015 21.7 4.0 21 76-96 46-66 (68)
78 4fu6_A PC4 and SFRS1-interacti 36.7 12 0.00041 28.7 1.2 18 126-143 18-35 (153)
79 1pft_A TFIIB, PFTFIIBN; N-term 35.4 24 0.00082 21.6 2.3 24 165-188 7-33 (50)
80 1yvc_A MRR5; structure, autost 35.0 48 0.0016 21.7 4.0 21 76-96 48-68 (70)
81 1vq8_Z 50S ribosomal protein L 32.8 31 0.0011 24.0 2.8 24 165-188 29-54 (83)
82 2ivw_A PILP pilot protein; lip 32.4 70 0.0024 23.5 4.8 28 68-95 46-76 (113)
83 2r7d_A Ribonuclease II family 31.7 1.5E+02 0.0053 26.6 8.0 55 75-151 402-457 (469)
84 2kpi_A Uncharacterized protein 31.2 28 0.00095 22.3 2.1 24 165-189 12-38 (56)
85 2oqk_A Putative translation in 30.5 1.6E+02 0.0054 21.5 7.1 24 72-96 27-51 (117)
86 3qby_A Hepatoma-derived growth 29.8 20 0.00069 25.3 1.4 17 127-143 2-18 (94)
87 2ftc_K 39S ribosomal protein L 29.7 68 0.0023 23.0 4.2 17 129-145 2-18 (98)
88 2z0s_A Probable exosome comple 29.6 66 0.0022 26.2 4.7 32 130-162 63-94 (235)
89 2y4x_A PILP protein; biosynthe 28.8 76 0.0026 22.4 4.3 27 69-95 44-73 (93)
90 2owo_A DNA ligase; protein-DNA 28.4 58 0.002 31.1 4.7 53 130-184 368-428 (671)
91 2do3_A Transcription elongatio 28.4 1E+02 0.0036 20.6 4.7 24 71-94 15-48 (69)
92 1wi5_A RRP5 protein homolog; S 27.5 73 0.0025 22.8 4.2 26 129-155 17-42 (119)
93 2khj_A 30S ribosomal protein S 27.2 54 0.0018 23.2 3.4 24 73-96 75-98 (109)
94 2je6_I RRP4, exosome complex R 26.7 92 0.0031 25.7 5.2 31 130-161 71-101 (251)
95 2k4k_A GSP13, general stress p 26.0 98 0.0033 22.7 4.8 28 127-155 1-28 (130)
96 2eqs_A ATP-dependent RNA helic 25.9 63 0.0022 22.6 3.5 21 73-93 60-80 (103)
97 4gop_B Putative uncharacterize 25.8 1.6E+02 0.0054 21.5 5.9 18 128-145 82-101 (136)
98 1twf_I B12.6, DNA-directed RNA 25.6 27 0.00092 25.8 1.5 25 165-189 6-36 (122)
99 2nn6_I 3'-5' exoribonuclease C 24.8 87 0.003 25.1 4.6 23 74-96 136-160 (209)
100 2lc4_A PILP protein; type IV p 24.8 72 0.0025 23.4 3.7 27 69-95 51-80 (111)
101 2cqo_A Nucleolar protein of 40 24.5 75 0.0026 23.0 3.8 28 126-154 15-42 (119)
102 1dgs_A DNA ligase; AMP complex 24.4 41 0.0014 32.1 2.8 53 129-184 365-424 (667)
103 2nn6_G Exosome complex exonucl 24.3 98 0.0034 26.3 5.0 28 130-158 124-151 (289)
104 1ri0_A Hepatoma-derived growth 24.3 52 0.0018 23.8 2.8 17 127-143 16-32 (110)
105 2z1c_A Hydrogenase expression/ 24.1 1.5E+02 0.0052 20.0 5.0 16 81-96 6-21 (75)
106 3irb_A Uncharacterized protein 23.8 30 0.001 26.2 1.5 28 160-190 43-72 (145)
107 2ckk_A KIN17; beta barrel, rib 23.8 1.5E+02 0.0053 21.9 5.5 37 60-96 57-105 (127)
108 2l89_A PWWP domain-containing 23.4 32 0.0011 24.7 1.5 16 129-144 4-19 (108)
109 3u50_C Telomerase-associated p 23.2 1.2E+02 0.004 23.8 4.9 41 137-188 27-68 (172)
110 3h0g_I DNA-directed RNA polyme 22.9 39 0.0013 24.6 1.9 25 165-189 6-36 (113)
111 3tbo_A Zinc finger, CDGSH-type 22.7 69 0.0024 21.0 2.9 25 143-171 6-30 (60)
112 1gh9_A 8.3 kDa protein (gene M 22.6 52 0.0018 22.2 2.4 23 165-188 6-29 (71)
113 3qt1_I DNA-directed RNA polyme 22.6 20 0.0007 27.1 0.3 25 165-189 26-56 (133)
114 1vk6_A NADH pyrophosphatase; 1 22.5 30 0.001 28.9 1.3 27 165-191 109-137 (269)
115 2e6z_A Transcription elongatio 22.1 93 0.0032 19.7 3.5 24 73-96 7-40 (59)
116 1h3z_A Hypothetical 62.8 kDa p 21.5 54 0.0019 23.4 2.4 15 129-143 5-19 (109)
117 4av2_M PILP protein, type IV p 21.5 62 0.0021 25.6 3.0 30 64-94 111-143 (181)
118 3pwf_A Rubrerythrin; non heme 21.1 30 0.001 27.0 1.1 24 163-188 138-162 (170)
119 2khi_A 30S ribosomal protein S 20.9 82 0.0028 22.5 3.3 25 72-96 74-98 (115)
120 3mea_A SAGA-associated factor 20.7 3E+02 0.01 21.7 6.9 86 71-158 42-157 (180)
121 1khc_A DNA cytosine-5 methyltr 20.7 64 0.0022 24.6 2.8 17 127-143 8-24 (147)
122 1vq8_T 50S ribosomal protein L 20.3 66 0.0022 23.9 2.7 38 81-118 60-98 (120)
123 1pqv_S STP-alpha, transcriptio 20.1 33 0.0011 29.4 1.1 14 179-192 296-309 (309)
No 1
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Probab=100.00 E-value=5.8e-45 Score=299.53 Aligned_cols=162 Identities=21% Similarity=0.287 Sum_probs=151.2
Q ss_pred ceEEecCCccCCCCCeeeCCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEEEEE
Q 028346 8 MVLVTPGEVLGKATEVKAGKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARVTKV 87 (210)
Q Consensus 8 ~~iV~PGd~l~~~ee~~~G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V~~v 87 (210)
|++|+|||.|+..++|.+|+|||.++|+ |+||++|.+++ +++.++|+|.++++|.|+ ||+|+|+|+++
T Consensus 1 m~iV~PGd~l~~~~~~~~G~Gty~~~~~--i~as~~G~v~~---------~~~~v~V~~~~~~~y~p~-GdiV~G~V~~V 68 (179)
T 3m7n_A 1 MRFVMPGDRIGSAEEYVKGEGVYEEGGE--LFAAVAGKLII---------KDRVAKVESISPIPEIVK-GDVVLGRVVDL 68 (179)
T ss_dssp CCEECTTCEEEETTTSEECTTEEEETTE--EEESSSEEEEE---------ETTEEEEEESSCCCCCCT-TCEEEEEEEEE
T ss_pred CeEEcCCCCCCCCCCEeccCCEEEeCCE--EEEEEEEEEEE---------eCCEEEEEECCCCcccCC-CCEEEEEEEEE
Confidence 4789999999998999999999999999 99999999998 357999999987789999 99999999999
Q ss_pred ecCeEEEEEeee--ccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcceEEEeecCCceeeEEE
Q 028346 88 MTRMASADIMCV--GAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAYFLSTAKNDLGVVSAE 165 (210)
Q Consensus 88 ~~~~a~V~I~~v--~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv~a~ 165 (210)
++++|+|+|.++ +++++..+++|+||+||+++++.+ +++++|++||+|+|+|++ +++.|||++++||||+|+
T Consensus 69 ~~~ga~V~I~~v~~~~~~~~~~~~Gll~isei~~~~~~--~~~~~~~~GD~V~akVi~----~~i~LS~k~~~lGvv~a~ 142 (179)
T 3m7n_A 69 RNSIALIEVSSKKGENRGPSNRGIGILHVSNVDEGYVK--EISEAVGYLDILKARVIG----DNLRLSTKEEEMGVLRAL 142 (179)
T ss_dssp CSSEEEEEEEEETTCCSCCTTCEEEEEEGGGTTSSCCS--SGGGTCCTTCEEEEEEEE----TTTEEECCSTTCEEEECB
T ss_pred eCCcEEEEEccccCcccccccCeeEEEEHHHcCcchhh--CHhhcCCCCCEEEEEEEC----CeEEEEEecCCCCEEEec
Confidence 999999999998 556777899999999999988776 899999999999999998 579999999999999999
Q ss_pred c-CCCCeeEEcccceEEecccchh
Q 028346 166 S-TAGKLVYCISKYDLNIILFYSF 188 (210)
Q Consensus 166 ~-~~G~~m~~~~~~~l~C~~~~~~ 188 (210)
| +||.+|+|.+ ++|+||+|+..
T Consensus 143 ~~~~g~~m~~~~-~~~~cp~~g~~ 165 (179)
T 3m7n_A 143 CSNCKTEMVREG-DILKCPECGRV 165 (179)
T ss_dssp CTTTCCBCEECS-SSEECSSSCCE
T ss_pred ccccCCceEECC-CEEECCCCCCE
Confidence 9 9999999999 89999999875
No 2
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Probab=100.00 E-value=3.8e-46 Score=313.50 Aligned_cols=177 Identities=38% Similarity=0.564 Sum_probs=158.6
Q ss_pred CceEEecCCccCCCCCeeeCCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEEEE
Q 028346 7 EMVLVTPGEVLGKATEVKAGKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARVTK 86 (210)
Q Consensus 7 ~~~iV~PGd~l~~~ee~~~G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V~~ 86 (210)
+..+|+|||+|+..++|++|+|||+++|+ ||||++|.+.... .++.+++++|+|.++++|.|++||+|+|+|++
T Consensus 18 ~~~iV~PGd~l~~~~~~~~G~Gty~~~g~--I~Asv~G~v~~~~----~~~~~~vi~V~p~~~~~y~p~vGDvV~G~V~~ 91 (209)
T 2nn6_I 18 PVRYCIPGERLCNLEEGSPGSGTYTRHGY--IFSSLAGCLMKSS----ENGALPVVSVVRETESQLLPDVGAIVTCKVSS 91 (209)
T ss_dssp --CCCCTTCEEEETTTCCCSSSCEEETTE--EECCSCSCBCCCB----CTTSSBC-CBCCSCCCCCCCCTTCEEEEEEEE
T ss_pred CCcEEcCCCCCCCCCCeeecCCEEEECCE--EEEEEEEEEEEec----cCCcccEEEEecCCCCcCCCCCCCEEEEEEEE
Confidence 46789999999988899999999999999 9999999987631 01234578999998767999999999999999
Q ss_pred EecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCc-ceEEEeecCCceeeEEE
Q 028346 87 VMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDAR-AYFLSTAKNDLGVVSAE 165 (210)
Q Consensus 87 v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~-~~~LSt~~~~LGVv~a~ 165 (210)
+++++|+|+|.+++++.|..+|+|+||+||+++++.++.+|+++|++||+|+|+|+++++.+ .+.|||++++||||+|+
T Consensus 92 v~~~~a~V~I~~v~~~~L~~~~~GlIhisei~~~~~~~~~~~~~l~~GD~V~akVisi~~~~~~i~LS~k~~~lGVv~A~ 171 (209)
T 2nn6_I 92 INSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGDIVLAKVISLGDAQSNYLLTTAENELGVVVAH 171 (209)
T ss_dssp ECSSEEEEEEEESSSSCCCCSSCSCEEEEGGGTCSSCCCCGGGTCCSSSEEEEEEEEEETTTTEEEEECCSSSCEECCCB
T ss_pred EECceEEEEECccccccccCCceeEEEHHHcccccccccchhhhcCCCCEEEEEEEEEeCCCCeEEEEEecCCCcEEEEE
Confidence 99999999999999999999999999999999999888899999999999999999998754 59999999999999999
Q ss_pred cCCCCeeEEcccceEEecccchhh
Q 028346 166 STAGKLVYCISKYDLNIILFYSFW 189 (210)
Q Consensus 166 ~~~G~~m~~~~~~~l~C~~~~~~~ 189 (210)
|..|.+|+|.+|++|+||.|+...
T Consensus 172 c~~g~~m~~~~~~~m~cp~cg~~E 195 (209)
T 2nn6_I 172 SESGIQMVPISWCEMQCPKTHTKE 195 (209)
T ss_dssp CSSSCBCEEEETTEEECTTTTCCB
T ss_pred cCCCCEEEEccCCEEECCCCCCEE
Confidence 955999999999999999999754
No 3
>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=100.00 E-value=1e-35 Score=262.55 Aligned_cols=179 Identities=19% Similarity=0.247 Sum_probs=142.0
Q ss_pred cCCceEEecCCccCCCCCeeeCCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEE
Q 028346 5 EEEMVLVTPGEVLGKATEVKAGKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARV 84 (210)
Q Consensus 5 ~~~~~iV~PGd~l~~~ee~~~G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V 84 (210)
.++.++|+|||.|+..++|.+|+|||.++|+ ||||++|.+.. .++.++|.|.++ +|.|++||+|+|+|
T Consensus 36 ~~~~~iVlPGd~L~~~~~~~~G~Gty~~~g~--I~Asv~G~v~~---------~~~~vsV~p~~~-rY~P~vGDvViG~V 103 (308)
T 2nn6_H 36 DTKKHLVVPGDTITTDTGFMRGHGTYMGEEK--LIASVAGSVER---------VNKLICVKALKT-RYIGEVGDIVVGRI 103 (308)
T ss_dssp ----CBCCTTCBCCCCTTCCBCTTEEECSSS--EEECSSEEEEE---------ETTEEEEEESSC-CCCCCSSBCCCEEE
T ss_pred CCCCcEEeCCCCCCCCCCEeecCCeEEECCE--EEEEEEEEEEe---------cCCEEEEeeCCC-ccCCCCCCEEEEEE
Confidence 4466899999999988899999999999999 99999999987 346899999985 79999999999999
Q ss_pred EEEecCeEEEEEeeecccccc---Cce-eEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcceEEEeecCCce
Q 028346 85 TKVMTRMASADIMCVGAKSVR---EKF-SGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAYFLSTAKNDLG 160 (210)
Q Consensus 85 ~~v~~~~a~V~I~~v~~~~l~---~~~-~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LG 160 (210)
+++++++|+|+|.+..+..+. ..| .|++|.++. .|+.+|+++|++||+|+|||+++++...+.|||++++||
T Consensus 104 t~V~~~~a~VdI~s~~~~~l~iS~v~f~gg~iR~~~~----~D~~~m~~~l~vGDlV~ArVisv~~~~~i~LStr~~~LG 179 (308)
T 2nn6_H 104 TEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSA----EDELAMRGFLQEGDLISAEVQAVFSDGAVSLHTRSLKYG 179 (308)
T ss_dssp EEEETTEEEEECSSSSCEEEESSCCC-----------------CHHHHHHSCSSCEECCEEEEEETTTEEEEECCSSTTC
T ss_pred EEEeCceEEEEECCCcCCceechhhccccceeecccc----hhhhhhhccCCCCCEEEEEEEEcCCCCCEEEEecCcCCc
Confidence 999999999999654443221 123 244444432 233479999999999999999998767899999999999
Q ss_pred eeEEEc--CCCCeeEEcccceEEecccchhhhHHHHHHhhcccceEEE
Q 028346 161 VVSAES--TAGKLVYCISKYDLNIILFYSFWIFCILQIASNIISFITL 206 (210)
Q Consensus 161 Vv~a~~--~~G~~m~~~~~~~l~C~~~~~~~~~~~~~~~~~~~~~~~~ 206 (210)
++.+.| .+...|+|..|++|+|+.|+ .+|+.++|+||-.
T Consensus 180 kL~~G~v~~vs~~lv~r~~~~l~~l~~g-------~eI~vG~NG~IWi 220 (308)
T 2nn6_H 180 KLGQGVLVQVSPSLVKRQKTHFHDLPCG-------ASVILGNNGFIWI 220 (308)
T ss_dssp EECSSCEEECCTTSCCCSTTCSCCCBTT-------BEEEEETTTEEEE
T ss_pred ccCCeEEEEEChhheechhheEecCCCC-------cEEEEeCCCEEEE
Confidence 998877 45778999999999999764 6788889998864
No 4
>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=99.97 E-value=8.2e-32 Score=229.02 Aligned_cols=133 Identities=23% Similarity=0.307 Sum_probs=119.5
Q ss_pred ceEEecCCccCCCCCeeeCCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEEEEE
Q 028346 8 MVLVTPGEVLGKATEVKAGKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARVTKV 87 (210)
Q Consensus 8 ~~iV~PGd~l~~~ee~~~G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V~~v 87 (210)
+++|+|||.|+. ++|.+|+|||.++++ ||||++|.+... ++.++|.|.+. +|.|++||+|+|+|+++
T Consensus 2 ~~iV~PGd~l~~-~~~~~G~Gty~~~g~--i~as~~G~v~~~---------~~~v~V~p~~~-~y~p~~GDiV~G~V~~v 68 (229)
T 2ba0_A 2 RKIVLPGDLLST-NPRAAGYGTYVEGGK--VYAKIIGLFDQT---------ETHVRVIPLKG-RYTPSVGDVVIGIIREV 68 (229)
T ss_dssp CCEECTTCEEES-CTTSBCTTEEEETTE--EEECSSEEEEEC---------SSCEEEEECSS-SCCCCTTCEEEEEEEEE
T ss_pred CCEEcCCCCccc-CCeEecCCEEEeCCE--EEEEEEEEEEEe---------CCEEEEEeCCC-cccCCCCCEEEEEEEEE
Confidence 468999999985 679999999999999 999999999882 24699999975 69999999999999999
Q ss_pred ecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcceEEEeecCCceee
Q 028346 88 MTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAYFLSTAKNDLGVV 162 (210)
Q Consensus 88 ~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv 162 (210)
++++|+|+| ..+++|+||+++++.. .+..+++++|++||+|+|||+++++.+++.||+++++||++
T Consensus 69 ~~~~a~V~I--------~~~~~g~l~isev~~~-~~~~~~~~~l~~GD~V~arVi~v~~~~~i~LS~r~~~lG~L 134 (229)
T 2ba0_A 69 AANGWAVDI--------YSPYQAFLPVSENPEM-KPNKKPNEVLDIGDAIIAKVLNIDPKMKVTLTMKDRICRPI 134 (229)
T ss_dssp CSSEEEEEC--------SSSSCEEEEGGGCTTC-CTTSCGGGTCCTTCEEEEEEEEECTTCCEEEECCSSSCEEE
T ss_pred eCCeEEEEe--------CCCeEEEEEHHHcccc-ccccchhcccCCCCEEEEEEEEECCCCcEEEEEccccCCcc
Confidence 999999999 7789999999999832 23348999999999999999999877789999999999976
No 5
>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C
Probab=99.97 E-value=1.4e-31 Score=230.43 Aligned_cols=136 Identities=22% Similarity=0.267 Sum_probs=123.2
Q ss_pred CceEEecCCccCCCCCeeeCC--cEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEE
Q 028346 7 EMVLVTPGEVLGKATEVKAGK--GAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARV 84 (210)
Q Consensus 7 ~~~iV~PGd~l~~~ee~~~G~--GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V 84 (210)
+.++|+|||.|+. ++|.+|+ |||.++++ ||||++|.+... ++.++|.|.++++|.|++||+|+|+|
T Consensus 15 ~~~iV~PGd~l~~-~~~~~G~~~Gty~~~g~--i~as~~G~v~~~---------~~~v~V~p~~~~~y~p~~GDiV~G~V 82 (251)
T 2je6_I 15 PRSIVVPGELLAE-GEFQIPWSPYILKINSK--YYSTVVGLFDVK---------DTQFEVIPLEGSFYYPKINDIVIGLV 82 (251)
T ss_dssp SSCEECTTCEEEE-ECCCCCCCTTEEEETTE--EEECSSEEEEEE---------TTEEEEEESCCSCCCCCTTCEEEEEE
T ss_pred CCcEEcCCCCCcc-CCeeeCCCCCEEEECCE--EEEEEEEEEEEe---------CCEEEEEECCCcccCCCCCCEEEEEE
Confidence 4689999999996 6699999 99999999 999999999883 35799999987789999999999999
Q ss_pred EEEecCeEEEEEeeeccccccCceeEEEeccccccccccc-cccCCCCCCCCEEEEEEEEeCCCcceEEEeecCCceee
Q 028346 85 TKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDK-VDMHLSFRPGDIVRASVLSLGDARAYFLSTAKNDLGVV 162 (210)
Q Consensus 85 ~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~-~~~~~~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv 162 (210)
+++++++|+|+| ..+++|+||+++++..+.+. .+++++|++||+|+|||+++++.+.+.||+++++||++
T Consensus 83 ~~v~~~ga~VdI--------~~~~~GlL~isei~~~~~~~~~~~~~~l~vGD~V~arVi~v~~~~~i~LS~r~~~lG~L 153 (251)
T 2je6_I 83 EDVEIYGWVVDI--------KAPYKAYLPASNLLGRSINVGEDLRRYLDVGDYVIARIENFDRSIDPVLSVKGKDLGRV 153 (251)
T ss_dssp EEECSSEEEEEC--------SSSSCEEEEHHHHHTSCCCTTCCCSSSCCTTCEEEEEEEEEETTEEEEEECCSTTCEEC
T ss_pred EEEeCceEEEEc--------CCCeEEEEEHHHhcCCccccccchhhcCCCCCEEEEEEEEECCCCcEEEEEccccCCcc
Confidence 999999999999 77899999999998665533 68999999999999999999876789999999999955
No 6
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1
Probab=99.97 E-value=2.2e-30 Score=220.81 Aligned_cols=136 Identities=24% Similarity=0.267 Sum_probs=76.8
Q ss_pred ceEEecCCccCCCCCeeeCCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEEEEE
Q 028346 8 MVLVTPGEVLGKATEVKAGKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARVTKV 87 (210)
Q Consensus 8 ~~iV~PGd~l~~~ee~~~G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V~~v 87 (210)
.++|+|||.|+. ++|.+|+|||.++++ ||||++|.+.. +++++.++|+|.+. +|.|++||+|+|+|+++
T Consensus 9 ~~iV~PGd~l~~-~~~~~G~Gty~~~~~--I~Asv~G~v~~-------~~~~~~vsV~p~~~-~y~p~~GDiV~G~V~~v 77 (235)
T 2z0s_A 9 GRIVVPGEPLPE-EVEASPPYVIDYKGV--KRATVVGLLRE-------KGDGGGRAFVKLKE-IYVPQAGDVVIGLIQSV 77 (235)
T ss_dssp -------------------------------------------------------------C-CCCCCTTCCEEEEEEEE
T ss_pred CcEEeCCCCccc-CceEcCCCEEEECCE--EEEEEeEEEEE-------eCCccEEEEEeCCC-ccCCCCCCEEEEEEEEE
Confidence 468999999986 669999999999999 99999999887 23345799999875 69999999999999999
Q ss_pred ecCeEEEEEeeeccccccCceeEEEecccccc--ccccccccCCCCCCCCEEEEEEEEeCCCcceEEEeecCCceee
Q 028346 88 MTRMASADIMCVGAKSVREKFSGIIRQQDVRA--TEIDKVDMHLSFRPGDIVRASVLSLGDARAYFLSTAKNDLGVV 162 (210)
Q Consensus 88 ~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~--~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv 162 (210)
++++|+|+| ..+++|+||+++++. ++.+..+++++|++||+|+|+|+++++.+.+.||++++.||++
T Consensus 78 ~~~~~~V~I--------~~~~~g~l~isei~~~~~~~~~~~~~~~l~~GD~V~a~Vi~v~~~~~i~LS~k~~~lG~l 146 (235)
T 2z0s_A 78 GIMNWFVDI--------NSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYIKAKVVAFDKTRSPLLTVQGEGLGRI 146 (235)
T ss_dssp CSSEEEEEC--------SSSSCEEEEHHHHHTSCCCTTTTCCTTSSCTTCEEEEEEEEECTTSCEEEECCSSSCEEC
T ss_pred eCCeEEEEe--------CCCeEEEEEHHHhCCCccccchhhHhhcCCCCCEEEEEEEEECCCCcEEEEEecccCccc
Confidence 999999999 778999999999964 3344568999999999999999999876789999999999966
No 7
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=99.96 E-value=1.3e-29 Score=221.88 Aligned_cols=138 Identities=20% Similarity=0.224 Sum_probs=108.5
Q ss_pred ceEEecCCccCCCC-----------------------Ceee--CCcEEEeCCeeEEEEeEeeeEEEcCCCCCCCCCCCeE
Q 028346 8 MVLVTPGEVLGKAT-----------------------EVKA--GKGAYVAKHNGLVYASLTGLLRTLSPPPDSPDQRPTV 62 (210)
Q Consensus 8 ~~iV~PGd~l~~~e-----------------------e~~~--G~GtY~~~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i 62 (210)
.++|+|||.|+..+ +|++ |+|||.++++ ||||++|.++....... ...+.+
T Consensus 39 ~~iVlPGD~L~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~G~Gty~~~~~--I~as~aG~l~~~~~~~~--~~~~~v 114 (289)
T 2nn6_G 39 GQVVLPGEELLLPEQEDAEGPGGAVERPLSLNARACSRVRVVCGPGLRRCGDR--LLVTKCGRLRHKEPGSG--SGGGVY 114 (289)
T ss_dssp SSBCCSSEEECCSCSCCEECSSEEECC-----------------------CCC--EEECSCCEEEEECCTTT--SSCCEE
T ss_pred CcEEeCCCCcCccccccccccccccccccccccccCcceEEccCCCeEEECCE--EEEEEeEeEEeccCCcc--CccceE
Confidence 46899999999876 7999 9999999999 99999999998421000 001478
Q ss_pred EEecCCCCCCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccc-cccccccccCCCCCCCCEEEEEE
Q 028346 63 EVTGHKAHGPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVR-ATEIDKVDMHLSFRPGDIVRASV 141 (210)
Q Consensus 63 ~V~p~~~~~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~-~~~~d~~~~~~~~~~GDiV~AkV 141 (210)
||+|.+ ++|+|++||+|+|+|+++++++|.|+| ..++.|+||.++++ +++ +|+++|++||+|+|||
T Consensus 115 ~V~~~~-~rYiP~vGDiVIG~Vt~v~~~~~~VdI--------~s~~~a~L~~~~f~Gatk----~~r~~f~~GDlV~ArV 181 (289)
T 2nn6_G 115 WVDSQQ-KRYVPVKGDHVIGIVTAKSGDIFKVDV--------GGSEPASLSYLSFEGATK----RNRPNVQVGDLIYGQF 181 (289)
T ss_dssp EEECCC-SSCCCCSSEEEEEEEEEEETTEEEEEC--------SSSSCCCEESCSSSCCSS----CSSSSSCTTCEEEEEE
T ss_pred EEEecC-CCCCCCCCCEEEEEEEEEeCcEEEEEE--------CCCceeEEehhhcCcchh----hhhhhcCCCCEEEEEE
Confidence 999997 479999999999999999999999999 56799999999987 432 6999999999999999
Q ss_pred EEeCCCcceEEEe-----ecCCceee
Q 028346 142 LSLGDARAYFLST-----AKNDLGVV 162 (210)
Q Consensus 142 ~s~~d~~~~~LSt-----~~~~LGVv 162 (210)
+++++...+.||+ ++++||++
T Consensus 182 ~s~~~~~~~eLsc~~~~~k~~~lG~L 207 (289)
T 2nn6_G 182 VVANKDMEPEMVCIDSCGRANGMGVI 207 (289)
T ss_dssp EECCTTSCCEEECSBTTTTBCCCCSC
T ss_pred EEcCCCCceEEEecccccccccCCEe
Confidence 9998777899999 99999998
No 8
>2ja9_A Exosome complex exonuclease RRP40; RNA-binding protein, RNA, S1 domain, KH domain, hydrolase, RNA-binding, nuclear protein; 2.20A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.51.1.1
Probab=99.75 E-value=1.2e-17 Score=136.50 Aligned_cols=82 Identities=12% Similarity=0.146 Sum_probs=74.1
Q ss_pred CCCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccC-ceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCc
Q 028346 70 HGPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVRE-KFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDAR 148 (210)
Q Consensus 70 ~~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~-~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~ 148 (210)
++|.|++||+|+|+|+++.++.|+|+| .+ ++.|+||.+++... . .++++.|++||+|+|||++++...
T Consensus 1 krY~P~~gDvViG~V~~v~~~~~~VdI--------~~~~~~a~L~~s~~~g~-~--k~~r~~l~~GDlV~ArV~~~~~~~ 69 (175)
T 2ja9_A 1 KRYIPSVNDFVIGVIIGTFSDSYKVSL--------QNFSSSVSLSYMAFPNA-S--KKNRPTLQVGDLVYARVCTAEKEL 69 (175)
T ss_dssp CCCCCCTTCEEEEEEEEECSSEEEEES--------STTSCCEEEETTSSTTC-C--SSSCCCCCTTCEEEEEEEECCTTS
T ss_pred CCccCCCcCEEEEEEEEEECcEEEEEE--------CCCCccEEEEHHHCCch-h--hhhhccCCCCCEEEEEEEEecCCC
Confidence 379999999999999999999999999 66 89999999998722 2 279999999999999999998667
Q ss_pred ceEEE------eecCCceee
Q 028346 149 AYFLS------TAKNDLGVV 162 (210)
Q Consensus 149 ~~~LS------t~~~~LGVv 162 (210)
.+.|| +++++||++
T Consensus 70 ~~~Ltc~~~~~~r~~~lG~L 89 (175)
T 2ja9_A 70 EAEIECFDSTTGRDAGFGIL 89 (175)
T ss_dssp CCEEESSCTTTCSCTTCEEE
T ss_pred ceEEEecccccccccCCcCc
Confidence 89999 999999998
No 9
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=99.20 E-value=1.3e-10 Score=82.54 Aligned_cols=70 Identities=19% Similarity=0.274 Sum_probs=61.1
Q ss_pred CCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCC-cceEE
Q 028346 74 PEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDA-RAYFL 152 (210)
Q Consensus 74 p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~-~~~~L 152 (210)
+++||++.|+|+++.+..|+|+| ....+|++|+|++...+. +.|++||.|.|+|++++.. +.+.|
T Consensus 3 ~~~G~iv~G~V~~v~~~G~fV~l--------~~~~~Gllh~sel~~~~~------~~~~~Gd~V~v~V~~vd~~~~~i~l 68 (80)
T 2k52_A 3 VEPGKFYKGVVTRIEKYGAFINL--------NEQVRGLLRPRDMISLRL------ENLNVGDEIIVQAIDVRPEKREIDF 68 (80)
T ss_dssp CCTTCEEEEEEEEEETTEEEEEE--------ETTEEEEECGGGCSSCCG------GGCCTTCEEEEEEEEEETTTTEEEE
T ss_pred CCCCCEEEEEEEEEeCCEEEEEE--------CCCCEEEEEHHHCCcccc------eeeCCCCEEEEEEEEEECCCCEEEE
Confidence 68999999999999999999999 567999999999874332 6899999999999999754 77999
Q ss_pred EeecC
Q 028346 153 STAKN 157 (210)
Q Consensus 153 St~~~ 157 (210)
|++..
T Consensus 69 sl~~~ 73 (80)
T 2k52_A 69 KYIPL 73 (80)
T ss_dssp EECSC
T ss_pred EEeec
Confidence 98764
No 10
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis}
Probab=99.18 E-value=1.1e-10 Score=90.51 Aligned_cols=73 Identities=25% Similarity=0.293 Sum_probs=65.7
Q ss_pred CCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-CcceEE
Q 028346 74 PEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARAYFL 152 (210)
Q Consensus 74 p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~~~L 152 (210)
+++|++|.|+|+++++..|+|+| ....+|+||++++...+.. ++.+.|++||.|.|+|++++. .+.+.|
T Consensus 5 ~~vG~iv~G~V~~i~~~G~FV~l--------~~~~~Glihisel~~~~~~--~~~~~~~vGd~V~vkV~~vd~~~~kI~L 74 (130)
T 2k4k_A 5 FEVGSVYTGKVTGLQAYGAFVAL--------DEETQGLVHISEVTHGFVK--DINEHLSVGDEVQVKVLAVDEEKGKISL 74 (130)
T ss_dssp CCTTCEEEEEEEEEETTEEEEEE--------ETTEEEEEEGGGTSSSCCS--CGGGTCCTTCEEEEEEEEEETTTTEEEE
T ss_pred CCCCCEEEEEEEEEeCCeEEEEE--------CCCcEEEEEHHHCCccccc--CccccCCCCCEEEEEEEEEeCCCCEEEE
Confidence 68999999999999999999999 5679999999999876655 788999999999999999975 578999
Q ss_pred Eeec
Q 028346 153 STAK 156 (210)
Q Consensus 153 St~~ 156 (210)
|++.
T Consensus 75 Slk~ 78 (130)
T 2k4k_A 75 SIRA 78 (130)
T ss_dssp ESHH
T ss_pred EEee
Confidence 9975
No 11
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=99.16 E-value=2.6e-10 Score=86.50 Aligned_cols=87 Identities=18% Similarity=0.176 Sum_probs=68.4
Q ss_pred eEEEecCCCCCCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccc-cccccccCCCCCCCCEEEE
Q 028346 61 TVEVTGHKAHGPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRAT-EIDKVDMHLSFRPGDIVRA 139 (210)
Q Consensus 61 ~i~V~p~~~~~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~-~~d~~~~~~~~~~GDiV~A 139 (210)
.+.+.|.....+.+++|+++.|+|+++.+..++|+| ....+|++|++++... +.. ++.+.|++||.|.|
T Consensus 15 ~~~~~p~~~~~~~~~~G~~~~G~V~~v~~~G~FV~l--------~~~~~Glvhisel~~~~~~~--~~~~~~~vGd~V~v 84 (115)
T 2khi_A 15 VPRGSHWVAIAKRYPEGTKLTGRVTNLTDYGCFVEI--------EEGVEGLVHVSEMDWTNKNI--HPSKVVNVGDVVEV 84 (115)
T ss_dssp ------CCCSSCSSCSSCEEEEEEEEEETTEEEEEC--------STTCEEEEETTSSSCSSTTC--SSTTTCCTTCEEEE
T ss_pred hcccCCHHHHhhcCCCCCEEEEEEEEEECCEEEEEE--------CCCCEEEEEHHHCCcccccc--CcccEECCCCEEEE
Confidence 456667665456789999999999999999999999 5679999999999652 222 67889999999999
Q ss_pred EEEEeCC-CcceEEEeecC
Q 028346 140 SVLSLGD-ARAYFLSTAKN 157 (210)
Q Consensus 140 kV~s~~d-~~~~~LSt~~~ 157 (210)
+|++++. .+.+.||++..
T Consensus 85 kV~~vd~~~~rI~lslk~~ 103 (115)
T 2khi_A 85 MVLDIDEERRRISLGLKQC 103 (115)
T ss_dssp EEEEEETTTTEEEECCCCC
T ss_pred EEEEEECCCCEEEEEEEec
Confidence 9999975 46789998864
No 12
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=99.13 E-value=1.2e-10 Score=87.51 Aligned_cols=77 Identities=23% Similarity=0.369 Sum_probs=66.6
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCC-cc
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDA-RA 149 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~-~~ 149 (210)
...+++||+|.|+|+++.+..|+|+| ....+|+||++++...+.+ ++.+.|++||.|.|+|++++.. +.
T Consensus 26 ~~~~~~G~iv~G~V~~v~~~G~fV~l--------~~~~~Gll~~sel~~~~~~--~~~~~~~vGd~V~v~V~~vd~~~~k 95 (109)
T 2khj_A 26 VALNKKGAIVTGKVTAVDAKGATVEL--------ADGVEGYLRASEASRDRVE--DATLVLSVGDEVEAKFTGVDRKNRA 95 (109)
T ss_dssp TTTCCSSSEEEEEEEEECSSCEEEEC--------STTCBCCBCTTCCCSSSSS--SGGGSCCTTCEEEEEEEEEETTTTE
T ss_pred hhcCCCCCEEEEEEEEEECCeEEEEE--------CCCCEEEEEHHHcCccccc--ChhhccCCCCEEEEEEEEEECCCCE
Confidence 34579999999999999999999999 5679999999999766554 6788999999999999999754 57
Q ss_pred eEEEeecC
Q 028346 150 YFLSTAKN 157 (210)
Q Consensus 150 ~~LSt~~~ 157 (210)
+.||++..
T Consensus 96 i~LS~k~~ 103 (109)
T 2khj_A 96 ISLSVRAK 103 (109)
T ss_dssp EEEETTSS
T ss_pred EEEEEeec
Confidence 99998764
No 13
>1kl9_A Eukaryotic translation initiation factor 2 subuni; OB fold, helical domain; 1.90A {Homo sapiens} SCOP: a.60.14.1 b.40.4.5
Probab=99.12 E-value=2.6e-10 Score=93.47 Aligned_cols=79 Identities=18% Similarity=0.206 Sum_probs=58.0
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-Ccce
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARAY 150 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~~ 150 (210)
+.|++||+|.|+|+++++.+|+|+|.. ....+|++|+|+++..+.. ++++.|++||.|.|+|++++. .+.+
T Consensus 11 ~~p~~G~iv~G~V~~I~~fGaFV~L~e------~~g~eGLvhiSels~~~v~--~~~~~~~vGd~V~VkVl~vD~~~~rI 82 (182)
T 1kl9_A 11 KFPEVEDVVMVNVRSIAEMGAYVSLLE------YNNIEGMILLSELSRRRIR--SINKLIRIGRNECVVVIRVDKEKGYI 82 (182)
T ss_dssp SSCCTTCEEEEEEEEECSSEEEEEETT------TTTEEEEEEGGGC--------------CTTCEEEEEEEEEETTTTEE
T ss_pred cCCCCCCEEEEEEEEEeccEEEEEEcc------CCCcEEEEEHHHCCCcccC--CHHHhcCCCCEEEEEEEEEECCCCEE
Confidence 457999999999999999999999920 1458999999999876665 789999999999999999974 4679
Q ss_pred EEEeecCC
Q 028346 151 FLSTAKND 158 (210)
Q Consensus 151 ~LSt~~~~ 158 (210)
.||++..+
T Consensus 83 ~LSlk~~~ 90 (182)
T 1kl9_A 83 DLSKRRVS 90 (182)
T ss_dssp EEESTTCC
T ss_pred EEEEeecC
Confidence 99998754
No 14
>2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.12 E-value=1.7e-10 Score=85.96 Aligned_cols=74 Identities=19% Similarity=0.311 Sum_probs=63.2
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccC---ceeEEEeccccc-cccccccccCCCCCCCCEEEEEEEEeCCC
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVRE---KFSGIIRQQDVR-ATEIDKVDMHLSFRPGDIVRASVLSLGDA 147 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~---~~~Gii~~s~v~-~~~~d~~~~~~~~~~GDiV~AkV~s~~d~ 147 (210)
..+++|+++.|+|+++.+..|+|+| .. ..+|++|++++. ..+.+ ++.+.|++||.|+|+|++++.
T Consensus 8 ~~~~vG~i~~G~V~~v~~fG~FV~l--------~~~~~~~~Glvhisel~~~~~~~--~~~~~~~~Gd~V~VkV~~vd~- 76 (103)
T 2eqs_A 8 EEPTIGDIYNGKVTSIMQFGCFVQL--------EGLRKRWEGLVHISELRREGRVA--NVADVVSKGQRVKVKVLSFTG- 76 (103)
T ss_dssp SSCCTTCEEEEEEEEECSSCEEEEE--------CSSSSCCEEEECGGGTSSSSCCC--CHHHHCCTTCEEEEEEEEEET-
T ss_pred ccCCCCCEEEEEEEEEeccEEEEEE--------cCCCCCeEEEEEHHHCCCCcccC--CcccEeCCCCEEEEEEEEEEC-
Confidence 4579999999999999999999999 43 789999999994 33333 677889999999999999976
Q ss_pred cceEEEeec
Q 028346 148 RAYFLSTAK 156 (210)
Q Consensus 148 ~~~~LSt~~ 156 (210)
+.+.||++.
T Consensus 77 ~~i~LSlk~ 85 (103)
T 2eqs_A 77 TKTSLSMKD 85 (103)
T ss_dssp TEEEEESTT
T ss_pred CeeEEEEee
Confidence 579999886
No 15
>2a19_A EIF-2- alpha, eukaryotic translation initiation factor 2 alpha; transferase, protein biosynthesis, protein synthesis transferase complex; HET: TPO ANP; 2.50A {Saccharomyces cerevisiae} PDB: 2a1a_A* 1q46_A
Probab=99.11 E-value=3.9e-10 Score=91.80 Aligned_cols=77 Identities=19% Similarity=0.238 Sum_probs=61.5
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeecccccc--CceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-Cc
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVR--EKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-AR 148 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~--~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~ 148 (210)
..|++||+|.|+|+++++.+|+|+| . ...+|++|+|+++..+.. ++++.|++||.|.|+|++++. .+
T Consensus 11 ~~p~~G~iv~G~V~~i~~fGaFV~L--------~e~~gveGLvhiSels~~~v~--~~~~~~~vGd~V~vkVl~vd~~~~ 80 (175)
T 2a19_A 11 KYPEIDDIVMVNVQQIAEMGAYVKL--------LEYDNIEGMILLSELSRRRIR--SIQKLIRVGKNDVAVVLRVDKEKG 80 (175)
T ss_dssp SSCCTTCEEEEEEEEEETTEEEEEE--------TTTTTCEEEEECC----------CCCCCCCTTSEEEEEEEEEETTTT
T ss_pred cCCCCCCEEEEEEEEEecceEEEEE--------cCCCCcEEEEEHHHcCCcccC--CHHHcCCCCCEEEEEEEEEECCCC
Confidence 4578999999999999999999999 4 468999999999876665 789999999999999999974 46
Q ss_pred ceEEEeecCC
Q 028346 149 AYFLSTAKND 158 (210)
Q Consensus 149 ~~~LSt~~~~ 158 (210)
.+.||++...
T Consensus 81 ~I~LSlk~~~ 90 (175)
T 2a19_A 81 YIDLSKRRVS 90 (175)
T ss_dssp EEEEESTTCC
T ss_pred eEEEEEEecC
Confidence 7999998754
No 16
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.08 E-value=2.2e-10 Score=87.63 Aligned_cols=77 Identities=16% Similarity=0.120 Sum_probs=65.5
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccC-ceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCC--
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVRE-KFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDA-- 147 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~-~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~-- 147 (210)
.+.|++|+++.|+|++|.+..|+|+| .. ..+|+||++++...+.+ ++.+.|++||.|+|+|++++..
T Consensus 17 ~~~~~vG~iv~G~V~~I~~fGaFV~l--------~g~~~~Glvhisel~~~~~~--~~~~~~~~Gd~V~VkV~~vd~~~~ 86 (119)
T 2cqo_A 17 ENLPALYTIFQGEVAMVTDYGAFIKI--------PGCRKQGLVHRTHMSSCRVD--KPSEIVDVGDKVWVKLIGREMKND 86 (119)
T ss_dssp CCSCCTTCEEEEEEEEEETTEEEEEC--------TTCSSCEEEEHHHHCSSCCS--CHHHHCCTTCEEEEEEEEEEECSS
T ss_pred hcccCCCCEEEEEEEEEeCceEEEEE--------CCCcEEEEEEHHHCCccccc--ChhhcCCCCCEEEEEEEEEecccc
Confidence 45689999999999999999999999 32 36999999999866554 6778999999999999999742
Q ss_pred -cceEEEeecC
Q 028346 148 -RAYFLSTAKN 157 (210)
Q Consensus 148 -~~~~LSt~~~ 157 (210)
+.+.||++..
T Consensus 87 ~~~i~LSlk~~ 97 (119)
T 2cqo_A 87 RIKVSLSMKVV 97 (119)
T ss_dssp CEEEEEESTTB
T ss_pred CceEEEEEeec
Confidence 4789999864
No 17
>1go3_E DNA-directed RNA polymerase subunit E; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: b.40.4.5 d.230.1.1
Probab=99.01 E-value=1.2e-09 Score=89.23 Aligned_cols=82 Identities=17% Similarity=0.236 Sum_probs=68.1
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccccccc--c-------cccCCCCCCCCEEEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEID--K-------VDMHLSFRPGDIVRASVL 142 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d--~-------~~~~~~~~~GDiV~AkV~ 142 (210)
+.|++|+++.|+|+++++.+++|+| . +++|++|++++...+.. . .+..+.|++||.|++||+
T Consensus 77 ~~~~~Gev~~G~V~~v~~~G~fV~l--------~-~~eglvhis~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~ 147 (187)
T 1go3_E 77 YIPEMYELIEGEVVDVVEFGSFVRL--------G-PLDGLIHVSQIMDDYVSYDPKREAIIGKETGKVLEIGDYVRARIV 147 (187)
T ss_dssp ECCCTTCEEEEEEEEEETTEEEEEC--------S-SSEEEEEGGGSCSSCEEECCC--CEEETTTCCEECTTCEEEEEEE
T ss_pred EccCCCCEEEEEEEEEeCcEEEEEE--------c-CccEEEEhHHhCCCcceECCccceEEecCCCeEEcCCCEEEEEEE
Confidence 4589999999999999999999999 3 48999999998644321 0 146788999999999999
Q ss_pred EeCCC------cceEEEeecCCceee
Q 028346 143 SLGDA------RAYFLSTAKNDLGVV 162 (210)
Q Consensus 143 s~~d~------~~~~LSt~~~~LGVv 162 (210)
+++.. ..+.||++++.||++
T Consensus 148 ~vd~~~~~p~~~~I~lS~k~~~LG~~ 173 (187)
T 1go3_E 148 AISLKAERKRGSKIALTMRQPYLGKL 173 (187)
T ss_dssp EEECCC-----CEEEEECCSTTCEEH
T ss_pred EEEcccCCCCccEEEEEEcCCCCCcH
Confidence 99742 268999999999976
No 18
>1luz_A Protein K3, protein K2; stranded anti-parallel beta barrel, viral protein; 1.80A {Vaccinia virus} SCOP: b.40.4.5
Probab=98.99 E-value=7.8e-10 Score=80.35 Aligned_cols=73 Identities=14% Similarity=0.211 Sum_probs=62.2
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccC--ceeEEEecc-ccccccccccccCCCCCCCCEEEEEEEEeCC-C
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVRE--KFSGIIRQQ-DVRATEIDKVDMHLSFRPGDIVRASVLSLGD-A 147 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~--~~~Gii~~s-~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~ 147 (210)
-.|++|+++.|+|+ +++.+|+|+| .. ..+|++|+| +++..+.. +.++.| +||.|+++|++++. .
T Consensus 7 ~~~~vG~~~~G~V~-v~~fG~FVel--------~~~~~~eGLvhis~el~~~~~~--~~~~~~-~Gd~V~VkV~~vd~~~ 74 (88)
T 1luz_A 7 SLPNAGDVIKGRVY-EKDYALYIYL--------FDYPHFEAILAESVKMHMDRYV--EYRDKL-VGKTVKVKVIRVDYTK 74 (88)
T ss_dssp CCCCTTCEEEEEEE-EETTEEEEEE--------TTCTTSEEEEGGGSSCCHHHHH--HHHHHH-TTCEEEEEEEEEETTT
T ss_pred cCCCCCCEEEEEEE-EEccEEEEEE--------CCCCCeEEEEEeeHHhCccccc--CHhHEe-CCCEEEEEEEEEECCC
Confidence 34899999999999 9999999999 42 589999999 99755544 567888 99999999999975 4
Q ss_pred cceEEEeec
Q 028346 148 RAYFLSTAK 156 (210)
Q Consensus 148 ~~~~LSt~~ 156 (210)
+.+.||++.
T Consensus 75 ~kI~lslk~ 83 (88)
T 1luz_A 75 GYIDVNYKR 83 (88)
T ss_dssp TEEEEEEEE
T ss_pred CEEEEEEee
Confidence 679999876
No 19
>3aev_A Translation initiation factor 2 subunit alpha; proteins-rRNA complex, 16S rRNA, RNA-binding; 2.80A {Pyrococcus horikoshii} PDB: 1yz6_A
Probab=98.95 E-value=4e-09 Score=91.50 Aligned_cols=77 Identities=19% Similarity=0.239 Sum_probs=67.6
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeecccccc--CceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-Cc
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVR--EKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-AR 148 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~--~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~ 148 (210)
..|++||+|.|+|+++.+.+|+|+| . ...+|+||+|+++..+.. ++++.|++||.|.|+|++++. .+
T Consensus 7 ~~p~~Gdiv~G~V~~I~~fGaFV~L--------~e~~gieGlIhiSels~~~v~--~~~~~~kvGd~V~vkVi~vD~~~~ 76 (275)
T 3aev_A 7 EYPEEGEFVVATVKRIHNYGAFLEL--------DEYPGKEAFMHISEVASTWVR--NIRDYLKEGQKVVAKVIRVDPRKG 76 (275)
T ss_dssp CCCCTTCEEEEEEEEEETTEEEEEE--------TTSTTCEEEEEGGGSCSSCCS--CGGGTCCTTCEEEEEEEEEETTTT
T ss_pred cCCCCCCEEEEEEEEEECcEEEEEE--------CCCCCeEEEEEHHHcCccccc--CHHhccCCCCEEEEEEEEEECCCC
Confidence 5689999999999999999999999 4 368999999999866655 788999999999999999975 56
Q ss_pred ceEEEeecCC
Q 028346 149 AYFLSTAKND 158 (210)
Q Consensus 149 ~~~LSt~~~~ 158 (210)
.+.||++...
T Consensus 77 ~I~LSlk~~~ 86 (275)
T 3aev_A 77 HIDLSLRRVT 86 (275)
T ss_dssp EEEEESTTCC
T ss_pred EEEEEEeecC
Confidence 7999998753
No 20
>4ayb_E DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_E 4b1o_E 4b1p_T 2waq_E 2wb1_E 2pmz_E 3hkz_E
Probab=98.89 E-value=1e-08 Score=83.16 Aligned_cols=82 Identities=21% Similarity=0.262 Sum_probs=67.2
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccccccc--c-------cccCCCCCCCCEEEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEID--K-------VDMHLSFRPGDIVRASVL 142 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d--~-------~~~~~~~~~GDiV~AkV~ 142 (210)
..|.+|+++.|+|+++++.+++|++ .+++|++|++++...+.. . .+..+.|++||.|++||+
T Consensus 77 ~~p~~Gev~~G~V~~v~~~G~fv~l---------~~~~glvh~s~l~~d~~~~d~~~~~~~g~~~~~~~~~Gd~VrvkV~ 147 (180)
T 4ayb_E 77 YVPVVQEVVEGEVLQVDNYGVFVNL---------GPMDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARVI 147 (180)
T ss_dssp ECCCTTCEEEEEEEEEETTEEEEEC---------SSSEEEEEGGGSCSSCEEECSSSCCEEETTTCCCCCTTCEEEEEEE
T ss_pred eeccCCCEEEEEEeeeccceEEEEE---------CCccceEEeeecCCCccccchhcceEEEeccCeEECCCCEEEEEEE
Confidence 4589999999999999999999998 358999999999754331 0 145678999999999999
Q ss_pred EeCC-----CcceEEEeecCCceee
Q 028346 143 SLGD-----ARAYFLSTAKNDLGVV 162 (210)
Q Consensus 143 s~~d-----~~~~~LSt~~~~LGVv 162 (210)
+++. ...+.||++++.||.+
T Consensus 148 ~v~~~~~~~~~rI~ls~k~~gLG~~ 172 (180)
T 4ayb_E 148 SVASTVTGRLPRIALTMRQPYLGKL 172 (180)
T ss_dssp EECC-------CEEEECCSTTCEEH
T ss_pred EEeCCCCcccCcEEEEcCCCCCCCC
Confidence 9973 2358999999999975
No 21
>1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=98.88 E-value=5.4e-09 Score=79.50 Aligned_cols=86 Identities=13% Similarity=0.153 Sum_probs=65.6
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-CcceE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARAYF 151 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~~~ 151 (210)
-+++|+++.|+|+++.+..|+|+|. .....|+++.++.... ....+..+.|++||.|+|+|++++. .+.+.
T Consensus 18 ~l~~G~i~~G~V~~v~~fG~fV~l~-------~~~~~~l~~~~~~~~~-~~~~~~~~~~~~Gd~V~vkV~~vd~~~~~i~ 89 (119)
T 1wi5_A 18 ALKPGMLLTGTVSSLEDHGYLVDIG-------VDGTRAFLPLLKAQEY-IRQKNKGAKLKVGQYLNCIVEKVKGNGGVVS 89 (119)
T ss_dssp TCCTTCEEEEEEEEECSSEEEEECC-------CSSCEEEEEHHHHHHH-HHHHSSSCCCCTTCEEEEEEEECCTTSCEEE
T ss_pred cCCCCCEEEEEEEEEeCceEEEEEC-------CCCeEEEEEEeccccc-ccccCccCEeCCCCEEEEEEEEEeCCCCEEE
Confidence 4789999999999999999999992 1235566665553211 1111567899999999999999975 46799
Q ss_pred EEeecCCceeeEEEc
Q 028346 152 LSTAKNDLGVVSAES 166 (210)
Q Consensus 152 LSt~~~~LGVv~a~~ 166 (210)
||+++.++|.-.++.
T Consensus 90 Lslk~~~l~~~~~~~ 104 (119)
T 1wi5_A 90 LSVGHSEVSTAIATE 104 (119)
T ss_dssp EECCCCCSCCCCCCS
T ss_pred EEEchhhcccceeec
Confidence 999999999765543
No 22
>1q8k_A Eukaryotic translation initiation factor 2 subunit 1; NMR {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 d.58.51.1
Probab=98.87 E-value=6.7e-09 Score=91.43 Aligned_cols=76 Identities=18% Similarity=0.232 Sum_probs=66.5
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeecccccc--CceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-Ccc
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVR--EKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARA 149 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~--~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~ 149 (210)
.|++||+|.|+|+++.+..|+|+| . ...+|++|+|+++..+.. ++++.|++||.|.|+|++++. .+.
T Consensus 10 ~~~vG~iv~G~V~~I~~fGaFV~L--------~ey~gveGLvhiSels~~~i~--~~~~~~kvGd~V~VkVl~vD~~~~r 79 (308)
T 1q8k_A 10 FPEVEDVVMVNVRSIQEMGAYVSL--------LEYNNIEGMIHLSELSRRRIR--SINKLIRIGRNECVKVIRVDKEKGY 79 (308)
T ss_dssp CCSSCCEEEEEEEEEETTEEEEES--------CTTTSCCEEECGGGTSCSSCS--CCTTTCSSSCEEEEEEEEEETTTTE
T ss_pred CCCCCCEEEEEEEEEeCcEEEEEE--------CCCCCeEEEEEhHHcCccccc--CHHHhcCCCCEEEEEEEEEeCCCCE
Confidence 478999999999999999999999 5 468999999999865554 789999999999999999975 467
Q ss_pred eEEEeecCC
Q 028346 150 YFLSTAKND 158 (210)
Q Consensus 150 ~~LSt~~~~ 158 (210)
+.||++...
T Consensus 80 I~LSlK~~~ 88 (308)
T 1q8k_A 80 IDLSKRRVS 88 (308)
T ss_dssp EEEECSSCC
T ss_pred EEEEEEecc
Confidence 899998753
No 23
>3cw2_C Translation initiation factor 2 subunit alpha; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2aho_B 3v11_B*
Probab=98.78 E-value=4.7e-09 Score=90.64 Aligned_cols=78 Identities=14% Similarity=0.214 Sum_probs=67.7
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeecccccc--CceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-C
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVR--EKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-A 147 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~--~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~ 147 (210)
.+.|++||++.|+|+++.+..|+|+| . ...+|+||+|+++..+.. ++++.|++||.|.++|++++. .
T Consensus 6 ~~~~~vG~iv~G~V~~I~~~GaFV~l--------~e~~~~~GlihiSels~~~v~--~~~~~~~vGd~V~VkVi~vd~~~ 75 (266)
T 3cw2_C 6 SKLPSEGEILIATVKQVFDYGSYVSL--------DEYGGLQAFLPWSEVSSKWVK--NIRDVLKENRKVIVKVIRVDRRK 75 (266)
T ss_dssp SSSCCTTCEEEEEEEECCSSSBEEEE--------TTTTSEECBBCGGGSSCSSCC--CHHHHSCTTCEEEEEECCCCSSS
T ss_pred cccCCCCCEEEEEEEEEeccEEEEEE--------cCCCCeEEEEEhHHcCccccc--CHHHhCcCCCEEEEEEEEEeCCC
Confidence 45789999999999999999999999 5 568999999999866554 678899999999999999975 4
Q ss_pred cceEEEeecCC
Q 028346 148 RAYFLSTAKND 158 (210)
Q Consensus 148 ~~~~LSt~~~~ 158 (210)
+.+.||++..+
T Consensus 76 g~I~LSlk~~~ 86 (266)
T 3cw2_C 76 GTVDVSLKKVT 86 (266)
T ss_dssp CCCBEESTTSC
T ss_pred CEEEEEEEecc
Confidence 67899998753
No 24
>2c35_B Human RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: b.40.4.5 d.230.1.1
Probab=98.68 E-value=7.3e-08 Score=77.61 Aligned_cols=83 Identities=23% Similarity=0.176 Sum_probs=64.1
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc-ccc---------ccCCCCCCCCEEEEE
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI-DKV---------DMHLSFRPGDIVRAS 140 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~-d~~---------~~~~~~~~GDiV~Ak 140 (210)
.+.|++|+++.|+|+++++..|+|+| . +++|++|+|++..... |.. ...+.|++||.|++|
T Consensus 76 ~~~~~~Gev~~G~V~~v~~fG~fV~l--------~-~~~glvhis~l~~~~~~d~~~~~~~~~~~~~~~~~~~Gd~V~vk 146 (172)
T 2c35_B 76 VFRPFKGEVVDAVVTQVNKVGLFTEI--------G-PMSCFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLK 146 (172)
T ss_dssp EECCCTTCEEEEEEEEEETTEEEEEE--------T-TEEEEEEGGGSCTTEEEESSSSSCEEEETTSCSEEETTCEEEEE
T ss_pred EeeCCCCCEEEEEEEEEeCCEEEEEE--------C-CEEEEEEHHHCCCCcEECCCCCccEEEeCCCCEEECCCCEEEEE
Confidence 34588999999999999999999999 3 6789999998863311 111 125689999999999
Q ss_pred EEEeCCC-c--ceEEEeecCCceee
Q 028346 141 VLSLGDA-R--AYFLSTAKNDLGVV 162 (210)
Q Consensus 141 V~s~~d~-~--~~~LSt~~~~LGVv 162 (210)
|++++.. + ...-|++++.||.+
T Consensus 147 V~~vd~~~~~~~~igsm~~~~LG~~ 171 (172)
T 2c35_B 147 IVGTRVDKNDIFAIGSLMDDYLGLV 171 (172)
T ss_dssp EEEEEEETTEEEEEEECCSTTCEEC
T ss_pred EEEEEcCCCCcEEEEEecCCCCCCC
Confidence 9998632 2 23448999999986
No 25
>1y14_B B16, RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 PDB: 1nt9_G 1wcm_G 1pqv_G 1y1v_G 1y1w_G 1y1y_G 1y77_G* 2b63_G* 2ja5_G* 2ja6_G* 2ja7_G* 2ja8_G* 2r7z_G 2r92_G 2r93_G 2vum_G* 3fki_G 3h3v_H 3hou_G* 3hov_G* ...
Probab=98.60 E-value=1.6e-07 Score=75.57 Aligned_cols=80 Identities=13% Similarity=0.052 Sum_probs=61.7
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc-ccccc-------CCCCCCCCEEEEEEEEe
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI-DKVDM-------HLSFRPGDIVRASVLSL 144 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~-d~~~~-------~~~~~~GDiV~AkV~s~ 144 (210)
.|.+|+++.|+|+++++.+++|+| .. .+|++|+|++..... |..+. ++.+++||.|++||+++
T Consensus 80 ~~~~Gev~~G~V~~v~~fG~FV~l--------~~-~dglvhis~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~~v 150 (171)
T 1y14_B 80 KPFKGEVVDGTVVSCSQHGFEVQV--------GP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGC 150 (171)
T ss_dssp CCCTTCEEEEEEEEEETTEEEEEE--------TT-EEEEEEGGGSCTTCEECC-----CEECSSCEECTTCEEEEEEEEE
T ss_pred cCCCCCEEEEEEEEEecCEEEEEe--------cC-eEEEEEHHHCCCCceECcccCceEEeccceEECCCCEEEEEEEEE
Confidence 478999999999999999999999 44 899999999863311 11111 26799999999999998
Q ss_pred CC-Cc---ceEEEeecCCceee
Q 028346 145 GD-AR---AYFLSTAKNDLGVV 162 (210)
Q Consensus 145 ~d-~~---~~~LSt~~~~LGVv 162 (210)
+- .+ .+. |++++.||.+
T Consensus 151 d~~~~~~~~ig-sm~~~~LG~~ 171 (171)
T 1y14_B 151 ISQVSSIHAIG-SIKEDYLGAI 171 (171)
T ss_dssp EEETTEEEEEE-ECCSTTCEEC
T ss_pred EcCCCCcEEEE-EcCCCCCCCC
Confidence 63 22 234 7899999974
No 26
>3go5_A Multidomain protein with S1 RNA-binding domains; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.40A {Streptococcus pneumoniae}
Probab=98.53 E-value=3.6e-07 Score=79.52 Aligned_cols=73 Identities=15% Similarity=0.102 Sum_probs=63.4
Q ss_pred CCCCCCCEEEEEEEEEecCeEEE-EEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-Ccc
Q 028346 72 PVPEPGSVVIARVTKVMTRMASA-DIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARA 149 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V-~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~ 149 (210)
...++||+|.|+|.++++..|+| +| ...+.|+||+||++ +.+++||.|.|+|+++++ .+.
T Consensus 148 ~~~~~G~~V~g~V~~i~~~G~fV~~i--------~~g~~Glih~SEl~----------~~l~~Gd~v~~~V~~id~~d~k 209 (285)
T 3go5_A 148 YNNMQNQNWPAIVYRLKLSGTFVYLP--------ENNMLGFIHPSERY----------AEPRLGQVLDARVIGFREVDRT 209 (285)
T ss_dssp CSCCTTCEEEEEEEEEETTEEEEEET--------TTTEEEEECGGGCS----------SCCCTTCEEEEEEEEEETTTTE
T ss_pred hhCCCCCEEEEEEEEEeCCcEEEEEe--------CCCeEEEEEHHHcc----------ccCCCCCEEEEEEEEEECCCCe
Confidence 34578999999999999999999 88 77899999999865 458999999999999986 678
Q ss_pred eEEEeecCCceee
Q 028346 150 YFLSTAKNDLGVV 162 (210)
Q Consensus 150 ~~LSt~~~~LGVv 162 (210)
+.||++......+
T Consensus 210 I~LSlk~~~~~~~ 222 (285)
T 3go5_A 210 LNLSLKPRSFEML 222 (285)
T ss_dssp EEEECSCCCCCCC
T ss_pred EEEEeChhhhhcc
Confidence 9999999876543
No 27
>3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=98.48 E-value=1.1e-07 Score=76.74 Aligned_cols=81 Identities=23% Similarity=0.151 Sum_probs=64.0
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc-cc-------cccCCCCCCCCEEEEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI-DK-------VDMHLSFRPGDIVRASVLS 143 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~-d~-------~~~~~~~~~GDiV~AkV~s 143 (210)
..|.+|+++.|+|+++++..++|++ . +++|++|++++..... |. .+..+.+++||.|++||++
T Consensus 80 f~p~~Gev~~G~V~~v~~fG~FV~l--------~-~~~glVh~s~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvkV~~ 150 (172)
T 3h0g_G 80 WRPFRGEVVDAIVTTVNKMGFFANI--------G-PLNVFVSSHLVPPDMKFDPTANPPNYSGEDQVIEKGSNVRLKIVG 150 (172)
T ss_dssp ECCCTTCEEECCCCEEETTEEECCB--------T-TBCCEEEGGGSCTTCCCBSSSSSCBEESSSCEECSSCCEEEEEEE
T ss_pred eccCCCCEEEEEEEEEEcceEEEEe--------C-CeEEEEEHHHCCCccccCcccccceEecCCcEECCCCEEEEEEEE
Confidence 4589999999999999999999999 3 5789999999853321 11 1234689999999999999
Q ss_pred eCCC----cceEEEeecCCceee
Q 028346 144 LGDA----RAYFLSTAKNDLGVV 162 (210)
Q Consensus 144 ~~d~----~~~~LSt~~~~LGVv 162 (210)
++.. ..+. |++++-||.+
T Consensus 151 vd~~~~~~~~Ig-tm~~~~LG~~ 172 (172)
T 3h0g_G 151 TRTDATEIFAIA-TMKEDYLGVL 172 (172)
T ss_dssp EEESSSCEEEEE-ECCSTTCEEC
T ss_pred EECCCCCceEEE-EcCCCCCCCC
Confidence 8632 2456 8899999975
No 28
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A
Probab=98.48 E-value=1.7e-08 Score=97.65 Aligned_cols=75 Identities=17% Similarity=0.214 Sum_probs=0.0
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcceEE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAYFL 152 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~L 152 (210)
.|++|+++.|+|+++.+.+|+|+| ....+|++|+|++...+.+ ++.+.|++||.|++||++++..+.+.|
T Consensus 634 ~~~vG~v~~G~V~~I~~fGaFVel--------~~g~eGLvHiSels~~rv~--~~~d~~kvGD~V~VkVi~iD~~grI~L 703 (726)
T 4aid_A 634 EAEVGKIYDGKVVKVVDFGAFVNF--------FGAKDGLVHVSQISNERVA--KPSDVLKEGQMVKVKLLGFDDRGKTKL 703 (726)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred hhcCCcEEEEEEEEEeccEEEEEE--------CCCcEEEEEHHHcCccccc--CccccCCCCCEEEEEEEEECCCCcEEE
Confidence 579999999999999999999999 5579999999999877666 788999999999999999986667999
Q ss_pred EeecC
Q 028346 153 STAKN 157 (210)
Q Consensus 153 St~~~ 157 (210)
|++..
T Consensus 704 S~K~~ 708 (726)
T 4aid_A 704 SMKVV 708 (726)
T ss_dssp -----
T ss_pred EEeec
Confidence 98763
No 29
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces cerevisiae}
Probab=98.47 E-value=1.9e-07 Score=94.69 Aligned_cols=78 Identities=13% Similarity=0.119 Sum_probs=68.6
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccccc-ccccccCCCCCCCCEEEEEEEEeC-CCcc
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATE-IDKVDMHLSFRPGDIVRASVLSLG-DARA 149 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~-~d~~~~~~~~~~GDiV~AkV~s~~-d~~~ 149 (210)
-.+++|++|.|+|++|++.+++|+| ....+|++|+|+++..+ .. +.++.|++||.|.|+|++++ +.+.
T Consensus 898 ~~l~~G~iv~G~V~~V~~fGaFV~L--------~~gveGLVHiSelsd~~~v~--~p~~v~kvGd~V~vkVl~VD~~~~r 967 (1219)
T 3psi_A 898 KTFFKGSIIPVRVERFWHNDIICTT--------NSEVECVVNAQRHAGAQLRR--PANEIYEIGKTYPAKVIYIDYANIT 967 (1219)
T ss_dssp TTSCTTCEEEEEEEEECSSCEEEEC--------TTSCEEEECTTSSSSTTSCS--CSTTTSCTTCEEEEEEEEEEGGGTE
T ss_pred hhCCCCCEEEEEEEEEecceEEEEe--------CCCceEEEEHHHcCCCcccC--CHHHcCCCCCEEEEEEEEEECCCCE
Confidence 4578999999999999999999999 56789999999998665 33 67899999999999999997 3467
Q ss_pred eEEEeecCCc
Q 028346 150 YFLSTAKNDL 159 (210)
Q Consensus 150 ~~LSt~~~~L 159 (210)
+.||+++.++
T Consensus 968 I~LSlk~~dl 977 (1219)
T 3psi_A 968 AEVSLLDHDV 977 (1219)
T ss_dssp EEEECCHHHH
T ss_pred EEEEecHHHh
Confidence 9999998776
No 30
>2b8k_G B16, DNA-directed RNA polymerase II 19 kDa polypeptide; DNA-dependent RNA polymerase, cellular RNA polymerase; 4.15A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1
Probab=98.45 E-value=4e-07 Score=76.25 Aligned_cols=83 Identities=13% Similarity=0.041 Sum_probs=64.2
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc-ccccc-------CCCCCCCCEEEEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI-DKVDM-------HLSFRPGDIVRASVLS 143 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~-d~~~~-------~~~~~~GDiV~AkV~s 143 (210)
..|++|+++.|+|+++++.+++|+| .. .+|++|++++..... |..+. ++.+++||.|++||++
T Consensus 79 ~~p~vGev~~G~V~~vt~fG~FVel--------g~-~dGlVhiS~l~d~~~~d~~~~~w~~~~~~~~~~~Gd~VrVkV~~ 149 (215)
T 2b8k_G 79 FKPFKGEVVDGTVVSCSQHGFEVQV--------GP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEG 149 (215)
T ss_dssp ECCCTTEEEEEEEEEEETTEEEEEC--------TT-SEEEEEGGGSCSSCCCBSSCSSCEEECSSCEEETTCEEEEEEEE
T ss_pred eccCCCCEEEEEEEEEecceEEEEe--------cC-cEEEEEHHHCCccceeccccccceeeccccEECCCCEEEEEEEE
Confidence 3479999999999999999999999 44 899999999863311 11111 2679999999999999
Q ss_pred eCC-Cc---ceEEEeecCCceeeEE
Q 028346 144 LGD-AR---AYFLSTAKNDLGVVSA 164 (210)
Q Consensus 144 ~~d-~~---~~~LSt~~~~LGVv~a 164 (210)
++- .+ .+. |++++.||.+.+
T Consensus 150 vd~~~~~i~~Ig-Smk~~~LG~~~~ 173 (215)
T 2b8k_G 150 CISQVSSIHAIG-SIKEDYLGAISH 173 (215)
T ss_dssp EEEETTEEEEEE-ECCSTTCEEC--
T ss_pred EEcCCCccEEEE-EcCCCCCCCcch
Confidence 863 22 356 899999999975
No 31
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces cerevisiae}
Probab=98.29 E-value=8.9e-08 Score=95.73 Aligned_cols=79 Identities=13% Similarity=0.113 Sum_probs=0.0
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccccc-ccccccCCCCCCCCEEEEEEEEeC-CCcc
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATE-IDKVDMHLSFRPGDIVRASVLSLG-DARA 149 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~-~d~~~~~~~~~~GDiV~AkV~s~~-d~~~ 149 (210)
-.+++|++|.|+|++|++.+++|+| ....+|++|+|+++..+ .. +..+.|++||.|.|+|++++ +.+.
T Consensus 901 ~~l~~G~iv~G~V~~V~~fGaFV~L--------~~gveGLVHiSelsd~~~v~--~~~~v~kvGd~V~vkVl~VD~~~~r 970 (1030)
T 3psf_A 901 KTFFKGSIIPVRVERFWHNDIICTT--------NSEVECVVNAQRHAGAQLRR--PANEIYEIGKTYPAKVIYIDYANIT 970 (1030)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHhcCCCEEEEEEEEEccCeEEEEe--------CCCcEEEEEHHHcCCCcccC--CHHHcCCCCCEEEEEEEEEECCCCE
Confidence 3568999999999999999999999 56689999999998654 33 67899999999999999997 4567
Q ss_pred eEEEeecCCce
Q 028346 150 YFLSTAKNDLG 160 (210)
Q Consensus 150 ~~LSt~~~~LG 160 (210)
+.||++..++-
T Consensus 971 I~LSlk~~dl~ 981 (1030)
T 3psf_A 971 AEVSLLDHDVK 981 (1030)
T ss_dssp -----------
T ss_pred EEEEechHHhc
Confidence 99999998883
No 32
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A
Probab=98.25 E-value=1.2e-07 Score=91.72 Aligned_cols=76 Identities=18% Similarity=0.211 Sum_probs=0.0
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcceE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAYF 151 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~~ 151 (210)
..+++|+++.|+|+++.+.+++|+| ....+|++|+|++...+.+ +..+.|++||.|++||++++..+.+.
T Consensus 623 ~~~~vG~i~~G~V~~i~~fGaFVel--------~~g~eGLvHiSel~~~~v~--~~~~~~~vGd~V~VkVi~vd~~grI~ 692 (723)
T 3cdi_A 623 AEIEVGRVYTGKVTRIVDFGAFVAI--------GGGKEGLVHISQIADKRVE--KVTDYLQMGQEVPVKVLEVDRQGRIR 692 (723)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred hhhhcCcEEEEEEEEEecceEEEEe--------CCCceEEEEHHHcCCcccc--CcccccCCCCEEEEEEEEECCCCcEE
Confidence 3578999999999999999999999 5568999999999876655 78899999999999999998656789
Q ss_pred EEeecC
Q 028346 152 LSTAKN 157 (210)
Q Consensus 152 LSt~~~ 157 (210)
||++..
T Consensus 693 LS~k~~ 698 (723)
T 3cdi_A 693 LSIKEA 698 (723)
T ss_dssp ------
T ss_pred EEEEec
Confidence 998753
No 33
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=98.22 E-value=4.5e-07 Score=88.49 Aligned_cols=76 Identities=25% Similarity=0.252 Sum_probs=66.3
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-CcceE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARAYF 151 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~~~ 151 (210)
.+++|++|.|+|+.|++.+++|+| ....+|++|+|+++..+.. +..+.|++||.|.++|++++. .+.+.
T Consensus 651 ~l~vG~iv~G~V~~V~~fGaFV~l--------~~~~eGLVhiS~Lsd~~v~--d~~~~~~vGd~V~VkVi~VD~~~~rI~ 720 (785)
T 3bzc_A 651 DLKPGMVLEGVVTNVTNFGAFVDI--------GVHQDGLVHISALSEKFVK--DPYEVVKAGDIVKVKVMEVDIPRNRVG 720 (785)
T ss_dssp TCCTTCBCCCEEEEEETTEEEEEC--------SSSSEEEEETTTSCSSCCS--CHHHHCCTTCCCCCBEEEEETTTTEEE
T ss_pred hcCCCCEEEEEEEEEecCCeEEEe--------CCCcEEEEEHHHcCccccC--ChhheeCCCCEEEEEEEEEECCCCEEE
Confidence 468999999999999999999999 5568999999999865554 677899999999999999974 46799
Q ss_pred EEeecCC
Q 028346 152 LSTAKND 158 (210)
Q Consensus 152 LSt~~~~ 158 (210)
||++..+
T Consensus 721 LSlk~~~ 727 (785)
T 3bzc_A 721 LSMRMSD 727 (785)
T ss_dssp ECCSSCC
T ss_pred EEEecCC
Confidence 9998765
No 34
>3ayh_B DNA-directed RNA polymerase III subunit RPC8; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=98.16 E-value=5.4e-06 Score=68.59 Aligned_cols=82 Identities=17% Similarity=0.195 Sum_probs=61.7
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc--cc---------------cccCCCCCCC
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI--DK---------------VDMHLSFRPG 134 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~--d~---------------~~~~~~~~~G 134 (210)
..|.+|+++.|+|+++++.+++|++ . .++|++|+++....+. |. .+-...+++|
T Consensus 77 f~p~~GEv~~G~Vs~vt~~GifV~l--------g-~~eglv~~~~l~~d~~~fd~~~~~~v~~~~~~~~~~~~~~~~~~G 147 (203)
T 3ayh_B 77 FRPFRGEVMLGKIKSCSEEGIRVTI--------S-FFDDIFIPKDMLFDPCVFRPDERAWVWKIEGEDGSEGTELYFDID 147 (203)
T ss_dssp ECCCTTCEEEEEEEEEETTEEEEEC--------S-SCCCEEEEGGGBCTTEEEEGGGTEEEEEECCCTTSCCEEEECCTT
T ss_pred EccCCCCEEEEEEEEEeccEEEEEE--------e-CceEEEEcHHhCCCCceECccCceEEeecccccccccCCcEEcCC
Confidence 4488999999999999999999999 3 6789999998753321 00 1234579999
Q ss_pred CEEEEEEEEeCCC------------------------cceEEEeecCCceee
Q 028346 135 DIVRASVLSLGDA------------------------RAYFLSTAKNDLGVV 162 (210)
Q Consensus 135 DiV~AkV~s~~d~------------------------~~~~LSt~~~~LGVv 162 (210)
|.|++||.+++-. ..+.+|++++.||.+
T Consensus 148 d~VrvrV~~v~~~~~~p~~~~~~~~~~~~~~~~~~~~~~i~gs~~~~gLG~~ 199 (203)
T 3ayh_B 148 EEIRFQIESEDFVDISPKRNKNATAITGTEALESVSPYTLIASCSRDGLGIP 199 (203)
T ss_dssp CEEEEEEEEEEECC--------------------CCSEEEEEEBCSTTCBCG
T ss_pred CEEEEEEEEEEccccCCCCccccccccccccccCCCCeEEEEEecCCCCcee
Confidence 9999999997420 016777888888764
No 35
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide transferase, ATP-GTP diphosphotransferase RNA processing, RNA degradation; 2.5A {Streptomyces antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4 d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Probab=98.12 E-value=1.5e-07 Score=91.58 Aligned_cols=76 Identities=14% Similarity=0.219 Sum_probs=36.7
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccc----ccccccccccCCCCCCCCEEEEEEEEeCCC
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDV----RATEIDKVDMHLSFRPGDIVRASVLSLGDA 147 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v----~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~ 147 (210)
..+++|+++.|+|+++.+..++|+| ....+|++|+|++ ...+.+ +.++.|++||.|++||++++..
T Consensus 663 ~~~~vG~i~~G~V~~i~~fGaFV~l--------~~g~eGLvHiSel~~~~s~~rv~--~~~~~~~vGd~V~VkVi~vd~~ 732 (757)
T 1e3p_A 663 TSPEVGERILGSVVKTTTFGAFVSL--------LPGKDGLLHISQIRKLAGGKRVE--NVEDVLGVGQKVQVEIAEIDSR 732 (757)
T ss_dssp ----------CBEEECC-CSCEECC--------C---CCCCC---------------------CCSSCBCCCCCCCCCSS
T ss_pred hhcccccEEEEEEEEccccEEEEEE--------cCCcEEEEEhHHhccccCCCccc--CcccccCCCCEEEEEEEEECCC
Confidence 3579999999999999999999999 5568999999999 655554 7889999999999999999865
Q ss_pred cceEEEeecC
Q 028346 148 RAYFLSTAKN 157 (210)
Q Consensus 148 ~~~~LSt~~~ 157 (210)
+.+.||++..
T Consensus 733 grI~LS~k~~ 742 (757)
T 1e3p_A 733 GKLSLIPVIE 742 (757)
T ss_dssp CC--------
T ss_pred CCEEEEEecC
Confidence 6789998764
No 36
>1hh2_P NUSA, N utilization substance protein A; transcription regulation, termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Probab=98.02 E-value=1.4e-05 Score=71.29 Aligned_cols=71 Identities=18% Similarity=0.240 Sum_probs=58.6
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCC---
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDA--- 147 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~--- 147 (210)
.|..++||+|.|+|.++.++.++|++ . ..+|+||.++.. ..+.|++||.|+|.|.++++.
T Consensus 129 e~~~~~GeIV~G~V~ri~~~~v~VDl--------G-k~EgiLp~sE~i--------p~E~~~vGD~Vkv~V~~V~~~~kg 191 (344)
T 1hh2_P 129 KYSELKGTVTTAEVIRVMGEWADIRI--------G-KLETRLPKKEWI--------PGEEIKAGDLVKVYIIDVVKTTKG 191 (344)
T ss_dssp CTTCCTTCEEEEEEEEECSSEEEEEE--------T-TEEEEEEGGGSC--------TTCCCCTTCEEEEEEEEEEEETTE
T ss_pred HHhhcCCCEEEEEEEEEecCcEEEEe--------C-CeEEEEeHHHcC--------CCcCCCCCCEEEEEEEEEEcCCCC
Confidence 35567999999999999999999999 4 689999999875 236899999999999999632
Q ss_pred cceEEEeecCC
Q 028346 148 RAYFLSTAKND 158 (210)
Q Consensus 148 ~~~~LSt~~~~ 158 (210)
.++.||-..++
T Consensus 192 ~~I~LSRt~p~ 202 (344)
T 1hh2_P 192 PKILVSRRVPE 202 (344)
T ss_dssp EEEEEESSSHH
T ss_pred cEEEEEeeccH
Confidence 35778877543
No 37
>2asb_A Transcription elongation protein NUSA; protein-RNA complex, transcription/RNA complex; 1.50A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 PDB: 2atw_A
Probab=97.98 E-value=1.1e-05 Score=68.82 Aligned_cols=72 Identities=17% Similarity=0.218 Sum_probs=59.2
Q ss_pred CCCCCCCEEEEEEEE----EecCeEEEEEeeeccccccC---ceeEEEeccccccccccccccCCCCCCCCEEEEEEEEe
Q 028346 72 PVPEPGSVVIARVTK----VMTRMASADIMCVGAKSVRE---KFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSL 144 (210)
Q Consensus 72 y~p~vGDiViG~V~~----v~~~~a~V~I~~v~~~~l~~---~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~ 144 (210)
|.-++||+|.|+|.+ +..+.++|+| .. ..+|+|+.++.. ..+.|++||.|+|.|.++
T Consensus 3 ~~~r~GeIVtG~V~r~~~~v~~~~ViVdl--------G~~~~k~EgiLP~~Eqi--------p~E~~~~GDrIkayV~~V 66 (251)
T 2asb_A 3 FSTREGEIVAGVIQRDSRANARGLVVVRI--------GTETKASEGVIPAAEQV--------PGESYEHGNRLRCYVVGV 66 (251)
T ss_dssp -CCCTTCEEEEEEECCHHHHHTTCEEEEE--------CSSSSCEEEEECGGGSC--------TTCCCCTTCEEEEEEEEE
T ss_pred hhhcCCCEEEEEEEEccccccCCeEEEEe--------CCCCcceEEEEcHHHcC--------CCccCCCCCEEEEEEEEE
Confidence 567899999999999 8999999999 43 489999988754 247899999999999999
Q ss_pred CCC---cceEEEeecCCc
Q 028346 145 GDA---RAYFLSTAKNDL 159 (210)
Q Consensus 145 ~d~---~~~~LSt~~~~L 159 (210)
.++ .++.||-..+++
T Consensus 67 ~~~~~gpqIiLSRt~p~l 84 (251)
T 2asb_A 67 TRGAREPLITLSRTHPNL 84 (251)
T ss_dssp ECCSSSCEEEEESSCHHH
T ss_pred EcCCCCCEEEEEeccHHH
Confidence 653 568899887653
No 38
>1k0r_A NUSA; two component arrangement, S1 domain, two K-homology domains., structural genomics, PSI, protein structure initiative; 1.70A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1
Probab=97.77 E-value=3.6e-05 Score=69.00 Aligned_cols=72 Identities=15% Similarity=0.208 Sum_probs=58.1
Q ss_pred CCCCCCCCEEEEEEEE----EecCeEEEEEeeeccccccC---ceeEEEeccccccccccccccCCCCCCCCEEEEEEEE
Q 028346 71 GPVPEPGSVVIARVTK----VMTRMASADIMCVGAKSVRE---KFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLS 143 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~----v~~~~a~V~I~~v~~~~l~~---~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s 143 (210)
.|..++||+|.|+|.+ +.++.++|+| .. ..+|+||.++... .+.|++||.|+|.|.+
T Consensus 125 ef~~r~GeIVtG~V~r~~~~v~~~~v~VdL--------G~~~~k~EgiLP~~EqiP--------~E~~~~GDrVkvyV~~ 188 (366)
T 1k0r_A 125 EFSTREGEIVAGVIQRDSRANARGLVVVRI--------GTETKASEGVIPAAEQVP--------GESYEHGNRLRCYVVG 188 (366)
T ss_dssp --CCCTTCEEEEEEECCHHHHHTTCEEEEE--------CCSSSCEEEEECGGGSCT--------TCCCCTTCEEEEEEEE
T ss_pred HHHhcCCCEEEEEEEEccccccCCeEEEEe--------CCCccceEEEEcHHHcCC--------CccCCCCCEEEEEEEE
Confidence 4567899999999999 9999999999 33 4899999988643 3789999999999999
Q ss_pred eCCC---cceEEEeecCC
Q 028346 144 LGDA---RAYFLSTAKND 158 (210)
Q Consensus 144 ~~d~---~~~~LSt~~~~ 158 (210)
+.+. ..+.||-..++
T Consensus 189 V~~~~kgpqI~LSRT~p~ 206 (366)
T 1k0r_A 189 VTRGAREPLITLSRTHPN 206 (366)
T ss_dssp EECCSSSCEEEEESSCHH
T ss_pred EecCCCccEEEEEeCChH
Confidence 9643 44777776664
No 39
>2bx2_L Ribonuclease E, RNAse E; RNA-binding, RNA turnover, RNA processing, hydrolase, endonu nuclease; 2.85A {Escherichia coli} PDB: 2c0b_L 2c4r_L 2vmk_A 2vrt_A 1slj_A 1smx_A 1sn8_A
Probab=97.49 E-value=0.0004 Score=64.86 Aligned_cols=83 Identities=11% Similarity=0.167 Sum_probs=63.2
Q ss_pred EEEecCCCCCCCCCCCCEEEEEEEEEecC--eEEEEEeeeccccccCceeEEEecccccccccc-------ccccCCCCC
Q 028346 62 VEVTGHKAHGPVPEPGSVVIARVTKVMTR--MASADIMCVGAKSVREKFSGIIRQQDVRATEID-------KVDMHLSFR 132 (210)
Q Consensus 62 i~V~p~~~~~y~p~vGDiViG~V~~v~~~--~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d-------~~~~~~~~~ 132 (210)
+.+++.. -.+.+|++..|+|+++.+. .|+|+| ...-.|.||++|+...+.. ..++.+.++
T Consensus 34 l~iE~~~---~~~~vGnIY~GkV~rv~p~~~aAFVdi--------G~gk~gfLhisei~~~~~~~~~~~~~~~~i~d~lk 102 (517)
T 2bx2_L 34 LDIESPG---HEQKKANIYKGKITRIEPSLEAAFVDY--------GAERHGFLPLKEIAREYFPANYSAHGRPNIKDVLR 102 (517)
T ss_dssp EEEECSS---SCCCTTCEEEEEEEEEETTTTEEEEES--------SSSSCEEEEGGGSCGGGCC-------CCCGGGTCC
T ss_pred EEEecCC---CcCCCCCEEEEEEEEeccCCceEEEEe--------CCCcEEEEEHHHcChhhhccccccccccchhhhcc
Confidence 4455433 2357999999999999999 899999 6778899999998644311 225778899
Q ss_pred CCCEEEEEEEEeCC-CcceEEEee
Q 028346 133 PGDIVRASVLSLGD-ARAYFLSTA 155 (210)
Q Consensus 133 ~GDiV~AkV~s~~d-~~~~~LSt~ 155 (210)
+||.|.++|.+... ++...||+.
T Consensus 103 ~Gq~VlVQV~Ke~~g~KGa~lTt~ 126 (517)
T 2bx2_L 103 EGQEVIVQIDKEERGNKGAALTTF 126 (517)
T ss_dssp TTCEEEEEEEECCCTTCCCEEESS
T ss_pred CCCEEEEEEEeeccccCCceEEee
Confidence 99999999999753 244667764
No 40
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=97.43 E-value=0.00026 Score=59.22 Aligned_cols=67 Identities=15% Similarity=0.122 Sum_probs=52.7
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc--cc----------cccCCCCCCCCEEE
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI--DK----------VDMHLSFRPGDIVR 138 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~--d~----------~~~~~~~~~GDiV~ 138 (210)
...|.+|+++.|+|++++..+++|++ ...++|++|+++....+. |. .+-...|+.||.|+
T Consensus 76 ~f~p~vGEv~~G~Is~Vt~fGifVeL--------~g~~eglv~~s~l~~d~~~fd~~~~~~vg~~~e~t~~~~~~Gd~Vr 147 (218)
T 2ckz_B 76 VFKPFLGEIVTGWISKCTAEGIKVSL--------LGIFDDIFIPQNMLFEGCYYTPEESAWIWPMDEETKLYFDVNEKIR 147 (218)
T ss_dssp EECCCTTCEEEEEEEEEETTEEEEEC--------TTSCCCEEEETTTSCTTCEEETTTTEEEEECC--CEEEECTTCEEE
T ss_pred EecCCCCCEEEEEEEEEccCcEEEEc--------cCccceEEEcHHHCCCCcEEcCcCceEEeeccccCCcEEcCCCEEE
Confidence 34588999999999999999999999 556899999998753321 10 12345699999999
Q ss_pred EEEEEeC
Q 028346 139 ASVLSLG 145 (210)
Q Consensus 139 AkV~s~~ 145 (210)
+||.+++
T Consensus 148 vrV~~v~ 154 (218)
T 2ckz_B 148 FRIEREV 154 (218)
T ss_dssp EEEEEEE
T ss_pred EEEEEEE
Confidence 9999985
No 41
>3go5_A Multidomain protein with S1 RNA-binding domains; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.40A {Streptococcus pneumoniae}
Probab=97.25 E-value=0.0029 Score=54.75 Aligned_cols=68 Identities=15% Similarity=0.022 Sum_probs=55.2
Q ss_pred CCCCCCEEEEEEEEEe-cCeEEEEEeeeccccccC-ceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCCCcce
Q 028346 73 VPEPGSVVIARVTKVM-TRMASADIMCVGAKSVRE-KFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGDARAY 150 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~-~~~a~V~I~~v~~~~l~~-~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d~~~~ 150 (210)
..++|+++.|+|++++ +..|+|++ .. ..+|++|.+|.+..+. ..+++||.+.++ +.++..+.+
T Consensus 66 ~~~~G~~~~g~V~~v~~~~GaFVdi--------G~~~~d~lvp~sel~~~~~------~~~~~Gd~v~v~-l~iD~~~Ri 130 (285)
T 3go5_A 66 TATQDQFGWGRVTEVRKDLGVFVDT--------GLPDKEIVVSLDILPELKE------LWPKKGDQLYIR-LEVDKKDRI 130 (285)
T ss_dssp CSCSSSCEEEEEEEEETTTEEEEEC--------SCTTCCEEEEGGGSCSSGG------GSCCTTCEEEEE-EEECTTSCE
T ss_pred cccCCCEEEEEEEEEccCceEEEEE--------CCCCcEEEEEHHHCCcccc------cccCCCCEEEEE-EEECCCCcE
Confidence 3579999999999999 79999999 65 4899999999874322 346999999655 678766679
Q ss_pred EEEee
Q 028346 151 FLSTA 155 (210)
Q Consensus 151 ~LSt~ 155 (210)
.||++
T Consensus 131 ~ls~k 135 (285)
T 3go5_A 131 WGLLA 135 (285)
T ss_dssp EEEEC
T ss_pred EEEeh
Confidence 99985
No 42
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli}
Probab=96.32 E-value=0.013 Score=42.82 Aligned_cols=41 Identities=12% Similarity=0.252 Sum_probs=36.7
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccccc
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATE 121 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~ 121 (210)
.|++|+.|.++|+++.+..++|+| ....+|++|+|+++..+
T Consensus 58 ~l~~Ge~V~g~V~~i~~fG~fv~l--------~~~~eGlvhis~i~~~~ 98 (101)
T 2bh8_A 58 NPQQGDRVEGKIKSITDFGIFIGL--------DGGIDGLVHLSDISWAQ 98 (101)
T ss_dssp CCCTTCEEEEEEEECCSEEEEECT--------TSCEEEEEEEEEEEECC
T ss_pred CCCCCCEEEEEEEEeCCcEEEEEc--------CCCceEEEEHHHCccCc
Confidence 689999999999999999999999 56789999999987543
No 43
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Probab=96.20 E-value=0.0096 Score=56.85 Aligned_cols=75 Identities=9% Similarity=0.139 Sum_probs=57.3
Q ss_pred CCCCC--EEEEEEEEEecCeEEEEEeeeccccccCceeEEEecccccc--cc--cc--cc----ccCCCCCCCCEEEEEE
Q 028346 74 PEPGS--VVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRA--TE--ID--KV----DMHLSFRPGDIVRASV 141 (210)
Q Consensus 74 p~vGD--iViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~--~~--~d--~~----~~~~~~~~GDiV~AkV 141 (210)
.++|+ +..|+|+++++.+++|+|. ....+|++|++++.. .+ .+ .. +....|++||.|+++|
T Consensus 556 ~~vGe~~~f~g~V~~V~~~G~fV~L~-------~~gieGlVhis~l~~~~d~~~~d~~~~~l~~~~~~~~~lGD~V~VkV 628 (644)
T 2id0_A 556 DKAGTDTRFAAEIVDISRGGMRVRLV-------DNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETVYKVTDVIDVTI 628 (644)
T ss_dssp GGTTSCCCEEEEEEEEETTEEEEEET-------TTCCEEEEEGGGTCSCGGGEEEETTTTEEEETTEEEEETTCEEEEEE
T ss_pred hccCCCceEEEEEEEEeCCceEEEEc-------CCcEEEEEEchhccCcCceeEEcccccEEEecCCCEeCCCCEEEEEE
Confidence 46898 9999999999999999992 246899999999852 11 11 00 2246799999999999
Q ss_pred EEeCC-CcceEEEee
Q 028346 142 LSLGD-ARAYFLSTA 155 (210)
Q Consensus 142 ~s~~d-~~~~~LSt~ 155 (210)
.+++. .+.+.|++.
T Consensus 629 ~~vd~~~~~I~~~l~ 643 (644)
T 2id0_A 629 AEVRMETRSIIARPV 643 (644)
T ss_dssp EEEETTTTEEEEEEC
T ss_pred EEEeCCCCEEEEEEc
Confidence 99974 467877764
No 44
>3d0f_A Penicillin-binding 1 transmembrane protein MRCA; BIG_1156.2, STR genomics, PSI-2, protein structure initiative; 1.64A {Nitrosomonas europaea atcc 19718}
Probab=95.46 E-value=0.063 Score=39.24 Aligned_cols=60 Identities=15% Similarity=0.184 Sum_probs=46.0
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc---cccc-cCCCCCCCCEEEEE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI---DKVD-MHLSFRPGDIVRAS 140 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~---d~~~-~~~~~~~GDiV~Ak 140 (210)
.|..|+...|.|+++.++.+.+.+ .....+.|..++++-... .... .++.|++||+|+.+
T Consensus 30 ~~~~~~~~~AvV~~v~~~~~~v~~--------~~g~~~~l~~~~~~WA~~~~~~~~~~~~~~l~~GdvI~V~ 93 (106)
T 3d0f_A 30 IGNSDDILAAVVLSATPGAVEAFR--------KNGETIRITGDGLKAAHRFLSNDPKIGEKRIRPGALIRVK 93 (106)
T ss_dssp SCTTTTCEEEEEEEEETTEEEEEE--------TTSCEEEECGGGGSTTGGGTTTCTTTGGGSCCTTEEEEEE
T ss_pred cCccCCeEEEEEEEeCCCeEEEEE--------cCCCeEEEcHHHChhhhhcccccccchhccCCCCCEEEEE
Confidence 467799999999999999999887 455666688887763321 1124 67889999999988
No 45
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16
Probab=95.29 E-value=0.022 Score=55.45 Aligned_cols=70 Identities=21% Similarity=0.144 Sum_probs=48.4
Q ss_pred CEEEEEEEEEecCeEEEEEeeeccccccC-ceeEEEeccccc--ccc--ccc--c-----c----cCCCCCCCCEEEEEE
Q 028346 78 SVVIARVTKVMTRMASADIMCVGAKSVRE-KFSGIIRQQDVR--ATE--IDK--V-----D----MHLSFRPGDIVRASV 141 (210)
Q Consensus 78 DiViG~V~~v~~~~a~V~I~~v~~~~l~~-~~~Gii~~s~v~--~~~--~d~--~-----~----~~~~~~~GDiV~AkV 141 (210)
++..|.|+++++.+++|.| .. ..+|++|++++. ..+ -++ . + ....|++||.|.++|
T Consensus 671 ~~~~g~V~~V~~~G~fV~l--------~~~giEGlVhis~L~~~~d~~~fd~~~~~l~g~~~~~~~~~~~~lGD~V~VkV 742 (760)
T 2vnu_D 671 STETGYVIKVFNNGIVVLV--------PKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQV 742 (760)
T ss_dssp SEEEEEEEEEETTEEEEEE--------TTTTEEEEEEHHHHCSCGGGCEEETTTTEEEECCTTCSSCEEEETTCEEEEEE
T ss_pred eEEEEEEEEEECCeEEEEE--------eCCCcEEEEEeccccCCCceeEEcccccEEEEecCCCccCcEEecCCEEEEEE
Confidence 7899999999999999999 54 789999999884 211 010 0 1 247899999999999
Q ss_pred EEeCCC----cceEEEee
Q 028346 142 LSLGDA----RAYFLSTA 155 (210)
Q Consensus 142 ~s~~d~----~~~~LSt~ 155 (210)
.+++.. +.+.||++
T Consensus 743 ~~vd~~~~~~~kI~lslk 760 (760)
T 2vnu_D 743 RSVMDPITSKRKAELLLK 760 (760)
T ss_dssp C--------CCEEEC---
T ss_pred EEEECccccCCcEEEEeC
Confidence 999754 56777653
No 46
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae}
Probab=94.86 E-value=0.046 Score=54.65 Aligned_cols=71 Identities=21% Similarity=0.138 Sum_probs=54.8
Q ss_pred CCEEEEEEEEEecCeEEEEEeeeccccccC-ceeEEEeccccc--ccc--ccc--c-----c----cCCCCCCCCEEEEE
Q 028346 77 GSVVIARVTKVMTRMASADIMCVGAKSVRE-KFSGIIRQQDVR--ATE--IDK--V-----D----MHLSFRPGDIVRAS 140 (210)
Q Consensus 77 GDiViG~V~~v~~~~a~V~I~~v~~~~l~~-~~~Gii~~s~v~--~~~--~d~--~-----~----~~~~~~~GDiV~Ak 140 (210)
|.+.-|.|+++++.+++|.| .. ..+|++|++++. ..+ -|+ . . ....|++||.|+++
T Consensus 887 ge~~~g~V~~V~~~G~fV~L--------~~~giEGlVhis~L~~~~d~y~fde~~~~L~g~~~~g~~~~~~~lGD~V~Vk 958 (977)
T 2wp8_J 887 ESTETGYVIKVFNNGIVVLV--------PKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQ 958 (977)
T ss_dssp TCEEEEEEEEECSSEEEEEC--------TTTCCEEEEEGGGTCSCGGGCEEETTTTEEEECCTTCCSCEEEETTCEEEEE
T ss_pred ceEEEEEEEEEcCCeEEEEE--------cCCCeEEEEEeccccCCCceeEEcccccEEEeecCCCccCcEEccCCEEEEE
Confidence 88999999999999999999 53 789999999985 211 010 0 1 24689999999999
Q ss_pred EEEeCCC----cceEEEee
Q 028346 141 VLSLGDA----RAYFLSTA 155 (210)
Q Consensus 141 V~s~~d~----~~~~LSt~ 155 (210)
|.+++.. +.+.||++
T Consensus 959 V~~vd~~~~~~~kI~Lslk 977 (977)
T 2wp8_J 959 VRSVMDPITSKRKAELLLK 977 (977)
T ss_dssp ECCCCCSSSCCCCCCEEEC
T ss_pred EEEEcCcccCCCceEEEeC
Confidence 9998751 46777764
No 47
>2rf4_A DNA-directed RNA polymerase I subunit RPA4; transferase DNA/RNA, DNA-binding, phosphorylation, POL I, POLI, rpoli, nuclear protein; 3.10A {Saccharomyces cerevisiae}
Probab=89.77 E-value=1.1 Score=36.74 Aligned_cols=67 Identities=12% Similarity=0.041 Sum_probs=44.9
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccc-c--------ccccC-CCCCCCCEEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEI-D--------KVDMH-LSFRPGDIVRASV 141 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~-d--------~~~~~-~~~~~GDiV~AkV 141 (210)
..|.+|+++.|+|+.++.+...+-+ -..|...|+...+++.-. + ..+.. +--++|+.|+-||
T Consensus 125 FrPf~GevL~G~V~~~s~~~Ig~~~--------~G~Fn~~Ip~~~ip~~~~f~~~~~~~~~~~wv~~~~~~ig~~IRFrV 196 (214)
T 2rf4_A 125 WQPQVGDVLEGYIFIQSASHIGLLI--------HDAFNASIKKNNIPVDWTFVHNDGNRSLGHWVDSNGEPIDGKLRFTV 196 (214)
T ss_dssp ECCCTTCEEEEEECCCCSSCEEEEE--------TTTEEEEECSTTSCSSCBCCCCSCC-CCCCCBCSSCCBCCSEEEEEE
T ss_pred EecCCCCEEEEEEEEECCCcEEEEE--------eCCEEEEEcHHHCCCcccccccccccCCCceEcCCCCCCCCEEEEEE
Confidence 3489999999999999998877765 356677777766642110 0 00110 1113699999999
Q ss_pred EEeCC
Q 028346 142 LSLGD 146 (210)
Q Consensus 142 ~s~~d 146 (210)
.++.-
T Consensus 197 ~~~~~ 201 (214)
T 2rf4_A 197 RNVHT 201 (214)
T ss_dssp EEEEC
T ss_pred EEEEe
Confidence 99863
No 48
>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0 2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0 2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ...
Probab=89.20 E-value=0.57 Score=33.24 Aligned_cols=58 Identities=22% Similarity=0.266 Sum_probs=42.8
Q ss_pred ccCCceEEecCCccCCC--CCeeeCCcEEEe-CCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecC
Q 028346 4 KEEEMVLVTPGEVLGKA--TEVKAGKGAYVA-KHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGH 67 (210)
Q Consensus 4 ~~~~~~iV~PGd~l~~~--ee~~~G~GtY~~-~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~ 67 (210)
|.-+.+.|.||..|..- ..|-||.++-.- |.. +||.+-|.|+.... ...++.|+|.|.
T Consensus 24 K~~~Gq~V~aG~IivRQRGtk~hPG~NVg~GkD~T--LfAl~~G~V~f~~~----~~~r~~VsV~p~ 84 (85)
T 3v2d_0 24 KRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFT--LFALVDGVVEFQDR----GRLGRYVHVRPL 84 (85)
T ss_dssp SSCTTCEECTTCEEEECSSCSEEECTTEEECTTCC--EEESSSEEEEEEEC----GGGCEEEEEEEC
T ss_pred EecCCeEEcCCeEEEecCCccCcCCCCEeEcCCCe--EEEecCEEEEEEEc----CCCCEEEEEEEC
Confidence 44567889999988642 359999999875 666 99999999988521 123456888874
No 49
>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3j19_W 2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W 2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W 2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W ...
Probab=85.90 E-value=0.89 Score=31.62 Aligned_cols=58 Identities=19% Similarity=0.296 Sum_probs=41.8
Q ss_pred ccCCceEEecCCccCCC--CCeeeCCcEEEe-CCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEec
Q 028346 4 KEEEMVLVTPGEVLGKA--TEVKAGKGAYVA-KHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTG 66 (210)
Q Consensus 4 ~~~~~~iV~PGd~l~~~--ee~~~G~GtY~~-~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p 66 (210)
|.-+.+.|.||..|..- ..|-||.++-.- |.. +||.+-|.|+.... ....++.|+|.|
T Consensus 15 K~~~Gq~V~aG~IivRQRGtk~hPG~NVG~GkD~T--LfAl~~G~V~f~~~---~~~~r~~VsV~p 75 (76)
T 3r8s_W 15 KRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHT--LFAKADGKVKFEVK---GPKNRKFISIEA 75 (76)
T ss_dssp SSCTTCEECTTCEEEECSSCSSEECTTEEECTTSC--EEESSSEEEEEEEE---TTTTEEEEEEEC
T ss_pred EecCCeEEecCcEEEeccCccCcCCCCeeecCCCe--EEEccCEEEEEEEe---CCCCCEEEEEEe
Confidence 44567889999988642 359999999875 666 99999999988420 011345678876
No 50
>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U* 1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0 2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T* 1pnu_U 1pny_U 1vor_X 1vou_X ...
Probab=85.89 E-value=0.89 Score=32.68 Aligned_cols=59 Identities=20% Similarity=0.312 Sum_probs=43.1
Q ss_pred ccCCceEEecCCccCCC--CCeeeCCcEEEe-CCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCC
Q 028346 4 KEEEMVLVTPGEVLGKA--TEVKAGKGAYVA-KHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHK 68 (210)
Q Consensus 4 ~~~~~~iV~PGd~l~~~--ee~~~G~GtY~~-~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~ 68 (210)
|.-+.+.|.||..|..- ..|-||.++-.- |.. |||.+-|.|+.... ...++.|+|.|..
T Consensus 24 K~~gGq~V~aG~IivRQRGtk~hPG~NVg~GkD~T--LfAl~~G~V~f~~~----~~~r~~V~V~p~~ 85 (91)
T 2zjr_T 24 KKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHT--LFALSDGKVVFINK----GKGARFISIEAAQ 85 (91)
T ss_dssp SSCTTCEECSSCEEECCSSSSSEECTTEECCTTSC--EEESSCEEEEEEEE----TTTEEEEEECCCC
T ss_pred EecCCeEEcCCeEEEecCCCEEcCCCCEEEcCCCc--EEeccceEEEEEEc----CCCcEEEEEEeCh
Confidence 44567889999988653 359999999765 666 99999999988410 1234578888753
No 51
>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=81.35 E-value=0.2 Score=33.74 Aligned_cols=30 Identities=7% Similarity=-0.168 Sum_probs=22.8
Q ss_pred eEEEc-CCCCeeEEcccceEEecccchhhhH
Q 028346 162 VSAES-TAGKLVYCISKYDLNIILFYSFWIF 191 (210)
Q Consensus 162 v~a~~-~~G~~m~~~~~~~l~C~~~~~~~~~ 191 (210)
+.-+| +||...-......++||.|+.|.|+
T Consensus 20 v~Y~C~~Cg~~~~l~~~~~iRC~~CG~RILy 50 (63)
T 3h0g_L 20 MIYLCADCGARNTIQAKEVIRCRECGHRVMY 50 (63)
T ss_dssp CCCBCSSSCCBCCCCSSSCCCCSSSCCCCCB
T ss_pred eEEECCCCCCeeecCCCCceECCCCCcEEEE
Confidence 44468 8998864445578999999999764
No 52
>1y71_A Kinase-associated protein B; structural genomics, midwest CE structural genomics, MCSG, protein structure initiative, PS unknown function; 1.95A {Bacillus cereus} SCOP: b.34.16.1
Probab=78.73 E-value=3.5 Score=31.36 Aligned_cols=27 Identities=26% Similarity=0.247 Sum_probs=24.3
Q ss_pred CCCCCEE---------EEEEEEEecCeEEEEEeeec
Q 028346 74 PEPGSVV---------IARVTKVMTRMASADIMCVG 100 (210)
Q Consensus 74 p~vGDiV---------iG~V~~v~~~~a~V~I~~v~ 100 (210)
.++||+| +|.|++.+++.+.|.+++|-
T Consensus 8 ~~~g~~v~~~yKTG~YigeI~e~~~~~~lVkVlaVl 43 (130)
T 1y71_A 8 FEIGEIVTGIYKTGKYIGEVTNSRPGSYVVKVLAVL 43 (130)
T ss_dssp CCTTCEEEEEETTEEEEEEEEEEETTEEEEEEEEEE
T ss_pred CCccceeEEEEecceeEEEEEeecCCeEEEEEEEEe
Confidence 5789999 89999999999999998874
No 53
>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O
Probab=74.06 E-value=3.1 Score=28.36 Aligned_cols=42 Identities=24% Similarity=0.331 Sum_probs=32.7
Q ss_pred ccCCceEEecCCccCCC--CCeeeCCcEEEe-CCeeEEEEeEeeeEE
Q 028346 4 KEEEMVLVTPGEVLGKA--TEVKAGKGAYVA-KHNGLVYASLTGLLR 47 (210)
Q Consensus 4 ~~~~~~iV~PGd~l~~~--ee~~~G~GtY~~-~g~~~I~Asv~G~v~ 47 (210)
|.-+.+.|.||..|..- ..|-||.++-.- |.. |||.+.|.|+
T Consensus 24 K~~~Gq~V~aG~IivrQRgtk~hPG~nVg~GkD~T--LfAl~~G~V~ 68 (69)
T 2ftc_O 24 KKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKC--LYALEEGIVR 68 (69)
T ss_pred EecCCeEecCCeEEEecCCCeEcCCCCeeecCCCc--EEEccceEEe
Confidence 44567889999988653 348999998764 666 9999999986
No 54
>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...
Probab=71.40 E-value=0.51 Score=32.34 Aligned_cols=31 Identities=0% Similarity=-0.223 Sum_probs=22.9
Q ss_pred eeEEEc-CCCCeeEEcccceEEecccchhhhH
Q 028346 161 VVSAES-TAGKLVYCISKYDLNIILFYSFWIF 191 (210)
Q Consensus 161 Vv~a~~-~~G~~m~~~~~~~l~C~~~~~~~~~ 191 (210)
.+.-+| .||...-....+.+.||.|++|-|+
T Consensus 26 ~v~Y~C~~CG~~~e~~~~d~irCp~CG~RILy 57 (70)
T 1twf_L 26 TLKYICAECSSKLSLSRTDAVRCKDCGHRILL 57 (70)
T ss_dssp CCCEECSSSCCEECCCTTSTTCCSSSCCCCCB
T ss_pred eEEEECCCCCCcceeCCCCCccCCCCCceEeE
Confidence 345579 9999854345568899999998664
No 55
>2qf4_A Cell shape determining protein MREC; filament A-lytic protease fold, structural protein; 1.20A {Streptococcus pneumoniae} PDB: 2qf5_A
Probab=65.44 E-value=16 Score=28.66 Aligned_cols=59 Identities=20% Similarity=0.277 Sum_probs=37.2
Q ss_pred EEEEEEEEecCeEEEEEeeecc--cc-----c-cCc-eeEEEecccc--ccccccccccCCCCCCCCEEE
Q 028346 80 VIARVTKVMTRMASADIMCVGA--KS-----V-REK-FSGIIRQQDV--RATEIDKVDMHLSFRPGDIVR 138 (210)
Q Consensus 80 ViG~V~~v~~~~a~V~I~~v~~--~~-----l-~~~-~~Gii~~s~v--~~~~~d~~~~~~~~~~GDiV~ 138 (210)
++|+|+++.++.+.|.++.-.+ .. . ... ..|++.-.+- ..-..+......-+++||.|.
T Consensus 47 lVG~V~~V~~~~S~V~Litd~~~~s~v~v~v~~~~~~~~Gil~G~~~~~~~l~l~~i~~~~~i~~GD~vv 116 (172)
T 2qf4_A 47 LIGSVSKVEENSTIVNLLTNTENADKISVKIQHGSTTIYGIIIGYDKENDVLKISQLNSNSDISAGDKVT 116 (172)
T ss_dssp EEEEEEEECSSCEEEEETTCSBCCSCCEEEEEETTEEEEEEEEEEETTTTEEEEECCSCCCCCCTTCEEE
T ss_pred cEEEEEEECCCeEEEEEEECCCCCEEEEEEEEcCCCCEEEEEEccCCCCCeEEEEECCCCCCCCCCCEEE
Confidence 5899999999999999976544 21 2 334 5677765432 111122223345689999874
No 56
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli}
Probab=59.61 E-value=40 Score=23.82 Aligned_cols=61 Identities=10% Similarity=-0.035 Sum_probs=39.6
Q ss_pred CCCCEEEEEEEEEecCe--EEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC
Q 028346 75 EPGSVVIARVTKVMTRM--ASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD 146 (210)
Q Consensus 75 ~vGDiViG~V~~v~~~~--a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d 146 (210)
+.++.+.|+|....... -++.-. ...-+..+|.++++.... ....+++||.|..+|..+.+
T Consensus 12 ~~~~~~~G~Vk~fn~~kGfGFI~~~-------~gg~dvfvH~s~l~~~~~----~~~~l~~Ge~V~g~V~~i~~ 74 (101)
T 2bh8_A 12 LQSGKMTGIVKWFNADKGFGFITPD-------DGSKDVFVHFSAGSSGAA----VRGNPQQGDRVEGKIKSITD 74 (101)
T ss_dssp ----CEEEEEEEEEGGGTEEEEEES-------SSSCEEEEECCCSCSSSC----CCCCCCTTCEEEEEEEECCS
T ss_pred cccccceeEEEEEECCCCCEEEEeC-------CCCcEEEEEEEEEecCCc----cccCCCCCCEEEEEEEEeCC
Confidence 45778999999985433 243330 234688999999874321 12457899999999998764
No 57
>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}
Probab=57.51 E-value=5.6 Score=36.11 Aligned_cols=73 Identities=14% Similarity=0.151 Sum_probs=52.8
Q ss_pred CCeeeCCcEEEe--CCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecCCCCCCCCCCCCEEEEEEEEEecC---eEEEE
Q 028346 21 TEVKAGKGAYVA--KHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGHKAHGPVPEPGSVVIARVTKVMTR---MASAD 95 (210)
Q Consensus 21 ee~~~G~GtY~~--~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~~~~~y~p~vGDiViG~V~~v~~~---~a~V~ 95 (210)
++...+.|+-+- +|.|.++++-.+.+.- ..-|+|.|..-+++-++.||.|.|.|..-+.. .+.+.
T Consensus 53 ~~~~~~~g~le~~~~g~gflr~~~~~y~~~----------~~d~yvs~~~ir~~~lr~gd~v~g~~r~~~~~e~~~~l~~ 122 (427)
T 3l0o_A 53 TGYFFGEGVLEIHPEGFGFLRRIEDNLLPS----------NDDIYISPSQIRKFNLNTGDIISGVIRKPKEGEKYFAMIK 122 (427)
T ss_dssp SSEEEEEEEEEECTTSCEEEECGGGTTCCC----------SSCEEECHHHHHHTTCCTTCEEEEEEECCCSSSCSEEEEE
T ss_pred cCceeEEEEEEEcCCCceEeeCCccCCCCC----------CCCeeeCHHHHHhcCCCCCCEEEEEEeCCCCCcccccceE
Confidence 346777888764 5776777765555432 12489998765677889999999999877653 68889
Q ss_pred Eeeecccc
Q 028346 96 IMCVGAKS 103 (210)
Q Consensus 96 I~~v~~~~ 103 (210)
|..|++.+
T Consensus 123 v~~vng~~ 130 (427)
T 3l0o_A 123 IEAINYRP 130 (427)
T ss_dssp EEEETTEE
T ss_pred EEecCCCC
Confidence 98888854
No 58
>2ja9_A Exosome complex exonuclease RRP40; RNA-binding protein, RNA, S1 domain, KH domain, hydrolase, RNA-binding, nuclear protein; 2.20A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.51.1.1
Probab=56.50 E-value=12 Score=29.74 Aligned_cols=29 Identities=31% Similarity=0.533 Sum_probs=21.0
Q ss_pred CCCCCCCCEEEEEEEEEecCeEEEEEeeec
Q 028346 71 GPVPEPGSVVIARVTKVMTRMASADIMCVG 100 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~~~a~V~I~~v~ 100 (210)
+...++||+|.++|.++..+. .+.+.|++
T Consensus 49 r~~l~~GDlV~ArV~~~~~~~-~~~Ltc~~ 77 (175)
T 2ja9_A 49 RPTLQVGDLVYARVCTAEKEL-EAEIECFD 77 (175)
T ss_dssp CCCCCTTCEEEEEEEECCTTS-CCEEESSC
T ss_pred hccCCCCCEEEEEEEEecCCC-ceEEEecc
Confidence 456799999999999998753 34444443
No 59
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=53.13 E-value=7.5 Score=26.34 Aligned_cols=25 Identities=4% Similarity=-0.218 Sum_probs=18.5
Q ss_pred Ec-CCCCeeEEc-ccceEEecccchhh
Q 028346 165 ES-TAGKLVYCI-SKYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~-~~~~l~C~~~~~~~ 189 (210)
.| .|++++.-. ..++|.|+.|+..|
T Consensus 10 ~CP~ck~~L~~~~~~~~LiC~~cg~~Y 36 (70)
T 2js4_A 10 VCPVCKGRLEFQRAQAELVCNADRLAF 36 (70)
T ss_dssp BCTTTCCBEEEETTTTEEEETTTTEEE
T ss_pred ECCCCCCcCEEeCCCCEEEcCCCCcee
Confidence 47 899887443 45799999998654
No 60
>3h8z_A FragIle X mental retardation syndrome-related Pro; tudor domains, FXR2, structura genomics, structural genomics consortium, SGC; 1.92A {Homo sapiens} PDB: 3o8v_A 3kuf_A 2bkd_N*
Probab=53.11 E-value=48 Score=24.89 Aligned_cols=66 Identities=23% Similarity=0.147 Sum_probs=44.3
Q ss_pred eEEEecCCCCCCCCCCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEE
Q 028346 61 TVEVTGHKAHGPVPEPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRAS 140 (210)
Q Consensus 61 ~i~V~p~~~~~y~p~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~Ak 140 (210)
.|+|.. +.|.-=-|.|+++..+.+.|... + .....-.++.+++|-.... .....|.+||.|.+-
T Consensus 7 ~VEV~~--------~~G~~y~a~V~~v~~d~~~V~f~---n---~w~~~~~vp~~~vRlpP~~--~~~~~f~~gd~VEV~ 70 (128)
T 3h8z_A 7 PVEVRG--------SNGAFYKGFVKDVHEDSVTIFFE---N---NWQSERQIPFGDVRLPPPA--DYNKEITEGDEVEVY 70 (128)
T ss_dssp EEEEEC--------TTSCEEEEEEEEECSSEEEEEET---T---CTTCCEEEEGGGEECCCCC------CCCTTCEEEEE
T ss_pred EEEEec--------CCCCEEEEEEEEEeCCcEEEEEc---c---ccCcceEechhhEEcCCCc--ccccCCCCCCEEEEE
Confidence 577774 23888889999999999999882 1 0112467888888844333 233678999999975
Q ss_pred EE
Q 028346 141 VL 142 (210)
Q Consensus 141 V~ 142 (210)
-.
T Consensus 71 ~~ 72 (128)
T 3h8z_A 71 SR 72 (128)
T ss_dssp EC
T ss_pred ec
Confidence 44
No 61
>1a62_A RHO; transcription termination, termination, RNA binding domain, transcription regulation, OB fold, F1-ATPase; 1.55A {Escherichia coli BL21} SCOP: a.140.3.1 b.40.4.5 PDB: 1a63_A 2a8v_A 1a8v_A
Probab=52.69 E-value=9.7 Score=28.73 Aligned_cols=43 Identities=9% Similarity=0.049 Sum_probs=31.7
Q ss_pred eEEEecCCCCCCCCCCCCEEEEEEEEEec---CeEEEEEeeecccc
Q 028346 61 TVEVTGHKAHGPVPEPGSVVIARVTKVMT---RMASADIMCVGAKS 103 (210)
Q Consensus 61 ~i~V~p~~~~~y~p~vGDiViG~V~~v~~---~~a~V~I~~v~~~~ 103 (210)
-|+|.|..-+++-.+.||.|.|+|..-++ ..+.+.|.+|++.+
T Consensus 78 DiyVs~~~irrf~lr~GD~V~g~vr~~~~~ek~~~l~~v~~vng~~ 123 (130)
T 1a62_A 78 DIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDK 123 (130)
T ss_dssp CEEECHHHHHHTTCCTTCEEEEEEECCCTTCCSEEEEEEEEETTBC
T ss_pred CEEECHHHHhHhCCCCCCEEEEEEeCCCCCCcccceeEEEeECCCC
Confidence 38888865456678999999999986654 24777777777654
No 62
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1
Probab=51.86 E-value=7.5 Score=26.19 Aligned_cols=25 Identities=12% Similarity=-0.230 Sum_probs=18.6
Q ss_pred Ec-CCCCeeEE-cccceEEecccchhh
Q 028346 165 ES-TAGKLVYC-ISKYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~-~~~~~l~C~~~~~~~ 189 (210)
.| .|++++.- ...++|.|+.|+..|
T Consensus 10 ~CP~ck~~L~~~~~~~~LiC~~cg~~Y 36 (68)
T 2hf1_A 10 VCPLCKGPLVFDKSKDELICKGDRLAF 36 (68)
T ss_dssp BCTTTCCBCEEETTTTEEEETTTTEEE
T ss_pred ECCCCCCcCeEeCCCCEEEcCCCCcEe
Confidence 37 89988744 346799999998654
No 63
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=51.69 E-value=7.6 Score=26.16 Aligned_cols=25 Identities=8% Similarity=-0.187 Sum_probs=18.4
Q ss_pred Ec-CCCCeeEE-cccceEEecccchhh
Q 028346 165 ES-TAGKLVYC-ISKYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~-~~~~~l~C~~~~~~~ 189 (210)
.| .|++++.- ...++|.|+.|+..|
T Consensus 10 ~CP~ck~~L~~~~~~~~LiC~~cg~~Y 36 (68)
T 2jr6_A 10 VCPVTKGRLEYHQDKQELWSRQAKLAY 36 (68)
T ss_dssp BCSSSCCBCEEETTTTEEEETTTTEEE
T ss_pred ECCCCCCcCeEeCCCCEEEcCCCCcEe
Confidence 47 88888744 346799999998654
No 64
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
Probab=50.10 E-value=5.7 Score=30.43 Aligned_cols=26 Identities=12% Similarity=-0.054 Sum_probs=20.2
Q ss_pred EEc-CCCCee-EEcccceEEecccchhhh
Q 028346 164 AES-TAGKLV-YCISKYDLNIILFYSFWI 190 (210)
Q Consensus 164 a~~-~~G~~m-~~~~~~~l~C~~~~~~~~ 190 (210)
-.| +|+..- +. ....+.||+|..-|-
T Consensus 28 P~CP~C~seytYe-Dg~l~vCPeC~hEW~ 55 (138)
T 2akl_A 28 PPCPQCNSEYTYE-DGALLVCPECAHEWS 55 (138)
T ss_dssp CCCTTTCCCCCEE-CSSSEEETTTTEEEC
T ss_pred CCCCCCCCcceEe-cCCeEECCccccccC
Confidence 358 899775 54 447999999999994
No 65
>2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1
Probab=49.49 E-value=6.9 Score=26.43 Aligned_cols=25 Identities=8% Similarity=-0.214 Sum_probs=18.4
Q ss_pred Ec-CCCCeeEE-cccceEEecccchhh
Q 028346 165 ES-TAGKLVYC-ISKYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~-~~~~~l~C~~~~~~~ 189 (210)
.| .|++++.- ...++|.|+.|+..|
T Consensus 10 ~CP~ck~~L~~~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 10 ACPICKGPLKLSADKTELISKGAGLAY 36 (69)
T ss_dssp CCTTTCCCCEECTTSSEEEETTTTEEE
T ss_pred eCCCCCCcCeEeCCCCEEEcCCCCcEe
Confidence 37 78888753 345799999998654
No 66
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell shape regulation; 2.5A {Listeria monocytogenes}
Probab=49.09 E-value=36 Score=28.25 Aligned_cols=59 Identities=22% Similarity=0.364 Sum_probs=36.4
Q ss_pred EEEEEEEEecCeEEEEEeeeccc----c---ccCc-eeEEEecccc--ccccccccccCCCCCCCCEEE
Q 028346 80 VIARVTKVMTRMASADIMCVGAK----S---VREK-FSGIIRQQDV--RATEIDKVDMHLSFRPGDIVR 138 (210)
Q Consensus 80 ViG~V~~v~~~~a~V~I~~v~~~----~---l~~~-~~Gii~~s~v--~~~~~d~~~~~~~~~~GDiV~ 138 (210)
++|+|+++.+..+.|.++.-.+. + .... ..|++.-.+- ..-......-..-+++||.|.
T Consensus 109 lVG~V~~V~~~~S~V~litd~~~~s~v~v~v~~s~~~~Gil~G~~~~~~~l~l~~i~~~~~i~~GD~Vv 177 (255)
T 2j5u_A 109 LIGKVTTTGAKSATVELLTSSDVKNRVSAKVQGKENAFGIINGYDSDTKLLELKQLPYDMKFKKGQKVV 177 (255)
T ss_dssp EEEEEEEECSSCEEEEETTCCCTTCCEEEEECSSSCEEEEEEEEETTTTEEEEEEEETTSCCCTTCEEE
T ss_pred cEEEEEEECCCeEEEEEEECCCCCeeEEEEEecCCcEEEEEEccCCCCCcEEEEECCCCCCCCCCCEEE
Confidence 69999999999999988654441 1 1234 6677765432 111122223345688999774
No 67
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=46.03 E-value=10 Score=25.40 Aligned_cols=25 Identities=8% Similarity=-0.133 Sum_probs=18.3
Q ss_pred Ec-CCCCeeEEc-ccceEEecccchhh
Q 028346 165 ES-TAGKLVYCI-SKYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~-~~~~l~C~~~~~~~ 189 (210)
.| .|++++... .+++|.|+.|+..|
T Consensus 12 ~CP~ck~~L~~~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 12 ACPKDKGPLRYLESEQLLVNERLNLAY 38 (67)
T ss_dssp BCTTTCCBCEEETTTTEEEETTTTEEE
T ss_pred CCCCCCCcCeEeCCCCEEEcCCCCccc
Confidence 47 788887543 45799999997654
No 68
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*
Probab=42.73 E-value=7.9 Score=29.45 Aligned_cols=28 Identities=7% Similarity=-0.262 Sum_probs=19.8
Q ss_pred eEEEc-CCCCeeEEccc-----------c----------eEEecccchhhh
Q 028346 162 VSAES-TAGKLVYCISK-----------Y----------DLNIILFYSFWI 190 (210)
Q Consensus 162 v~a~~-~~G~~m~~~~~-----------~----------~l~C~~~~~~~~ 190 (210)
..++| .||.... ... . .+.||.|+++-+
T Consensus 69 ~~~~C~~CG~~~~-~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~ 118 (139)
T 3a43_A 69 AVFKCRNCNYEWK-LKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDF 118 (139)
T ss_dssp CEEEETTTCCEEE-GGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCE
T ss_pred CcEECCCCCCEEe-cccccccccccccccccccccccccCCcCccccCCcc
Confidence 46789 8998753 333 3 588999998754
No 69
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=41.34 E-value=13 Score=23.39 Aligned_cols=26 Identities=4% Similarity=-0.344 Sum_probs=19.2
Q ss_pred EEEc-CCCC--eeEEcccceEEecccchhh
Q 028346 163 SAES-TAGK--LVYCISKYDLNIILFYSFW 189 (210)
Q Consensus 163 ~a~~-~~G~--~m~~~~~~~l~C~~~~~~~ 189 (210)
+-.| +||. .|.+- .+.+.|+.|+.-+
T Consensus 19 ~k~CP~CG~~~fm~~~-~~R~~C~kCG~t~ 47 (50)
T 3j20_Y 19 NKFCPRCGPGVFMADH-GDRWACGKCGYTE 47 (50)
T ss_dssp SEECSSSCSSCEEEEC-SSEEECSSSCCEE
T ss_pred cccCCCCCCceEEecC-CCeEECCCCCCEE
Confidence 3568 8998 66664 4799999998643
No 70
>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=40.69 E-value=1e+02 Score=22.42 Aligned_cols=58 Identities=14% Similarity=0.204 Sum_probs=35.3
Q ss_pred CCCCCCCEEEEEEEEEecC-eEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeC
Q 028346 72 PVPEPGSVVIARVTKVMTR-MASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLG 145 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~-~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~ 145 (210)
..|..| -++|+|++..++ .+.|.+ ...-.-+-|++. +. ..+=.+++||.|.+.....+
T Consensus 10 ~~p~eg-e~~g~V~~~lgn~~f~V~l--------~nG~~~la~i~G----K~---Rk~IwI~~GD~VlVe~~~yd 68 (111)
T 2dgy_A 10 IVPSNQ-QQIVRVLRTPGNNLHEVET--------AQGQRFLVSMPS----KY---RKNIWIKRGDFLIVDPIEEG 68 (111)
T ss_dssp CCCCSS-CEEEEEEECCSSSEEEEEC--------TTSCEEEEECCT----TC---CSCCCCCSSCEEEEEECSSC
T ss_pred cCCCCC-eEEEEEEEeCCCCEEEEEe--------CCCCEEEEEech----hh---cccEEEcCCCEEEEEecccC
Confidence 356655 589999998764 466666 333333334332 11 12455789999999876443
No 71
>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=39.08 E-value=79 Score=25.74 Aligned_cols=32 Identities=9% Similarity=0.123 Sum_probs=22.3
Q ss_pred CCCCCCEEEEEEEEeCCCcceEEEeecCCceee
Q 028346 130 SFRPGDIVRASVLSLGDARAYFLSTAKNDLGVV 162 (210)
Q Consensus 130 ~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv 162 (210)
..++||+|.++|.++.+. .+.+.+.++--|.|
T Consensus 54 ~p~~GDiV~G~V~~v~~~-~a~V~I~~~~~g~l 85 (229)
T 2ba0_A 54 TPSVGDVVIGIIREVAAN-GWAVDIYSPYQAFL 85 (229)
T ss_dssp CCCTTCEEEEEEEEECSS-EEEEECSSSSCEEE
T ss_pred cCCCCCEEEEEEEEEeCC-eEEEEeCCCeEEEE
Confidence 458999999999999653 45566654444443
No 72
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=39.01 E-value=26 Score=23.38 Aligned_cols=24 Identities=17% Similarity=0.194 Sum_probs=19.1
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADI 96 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I 96 (210)
.+++||.|.++|.++..+.-.+++
T Consensus 45 ~~~~Gd~V~v~V~~vd~~~~~i~l 68 (80)
T 2k52_A 45 NLNVGDEIIVQAIDVRPEKREIDF 68 (80)
T ss_dssp GCCTTCEEEEEEEEEETTTTEEEE
T ss_pred eeCCCCEEEEEEEEEECCCCEEEE
Confidence 478999999999999986444444
No 73
>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Probab=38.61 E-value=2 Score=34.86 Aligned_cols=58 Identities=21% Similarity=0.349 Sum_probs=40.0
Q ss_pred ccCCceEEecCCccCCC--CCeeeCCcEEEe-CCeeEEEEeEeeeEEEcCCCCCCCCCCCeEEEecC
Q 028346 4 KEEEMVLVTPGEVLGKA--TEVKAGKGAYVA-KHNGLVYASLTGLLRTLSPPPDSPDQRPTVEVTGH 67 (210)
Q Consensus 4 ~~~~~~iV~PGd~l~~~--ee~~~G~GtY~~-~g~~~I~Asv~G~v~~~~~~~~~d~~~~~i~V~p~ 67 (210)
|.-+.+.|.||..|..- ..|-||.++-.- |.. |||.+-|.|+.... ...++.|+|.|.
T Consensus 81 K~~gGq~V~aGnIIVRQRGTkfhPG~NVG~GkDhT--LFAl~~G~VkF~~~----~~~Rk~VsV~p~ 141 (198)
T 3bbo_X 81 KIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHT--IFSLIDGLVKFEKF----GPDRKKISVYPR 141 (198)
T ss_dssp SSSBCCSSCSCCSSSSCCCCSSCCCCSSSSCCCCC--SBCCSCCCCCSSSS----CCCCSCCCSSCC
T ss_pred EecCCeEeccCcEEEeccCceEcCCCCeeecCCCc--eEeccceEEEEEEc----CCCcEEEEEEeC
Confidence 44456789999988753 348899888653 656 99999999988421 123455777664
No 74
>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X
Probab=38.61 E-value=3.7 Score=25.94 Aligned_cols=26 Identities=8% Similarity=-0.292 Sum_probs=16.9
Q ss_pred Ec-CCCCeeEEcc---cceEEecccchhhh
Q 028346 165 ES-TAGKLVYCIS---KYDLNIILFYSFWI 190 (210)
Q Consensus 165 ~~-~~G~~m~~~~---~~~l~C~~~~~~~~ 190 (210)
.| +||..+-... --+.+||.|+.|.|
T Consensus 5 ~C~rCg~~fs~~el~~lP~IrCpyCGyrii 34 (48)
T 4ayb_P 5 RCGKCWKTFTDEQLKVLPGVRCPYCGYKII 34 (48)
T ss_dssp CCCCTTTTCCCCCSCCCSSSCCTTTCCSCE
T ss_pred EeeccCCCccHHHHhhCCCcccCccCcEEE
Confidence 47 8887653211 12579999998865
No 75
>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82
Probab=38.50 E-value=3.7 Score=30.24 Aligned_cols=32 Identities=19% Similarity=0.114 Sum_probs=22.4
Q ss_pred ceeeEEEc-CCCCeeEEcccceEEecccchhhh
Q 028346 159 LGVVSAES-TAGKLVYCISKYDLNIILFYSFWI 190 (210)
Q Consensus 159 LGVv~a~~-~~G~~m~~~~~~~l~C~~~~~~~~ 190 (210)
|-+..+.| +||..-...-..--.||.|.+.|+
T Consensus 63 L~v~p~~C~~CG~~F~~~~~kPsrCP~CkSe~I 95 (105)
T 2gmg_A 63 LLIKPAQCRKCGFVFKAEINIPSRCPKCKSEWI 95 (105)
T ss_dssp EEECCCBBTTTCCBCCCCSSCCSSCSSSCCCCB
T ss_pred EEEECcChhhCcCeecccCCCCCCCcCCCCCcc
Confidence 44566789 899885211123578999999886
No 76
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=38.50 E-value=7.5 Score=28.55 Aligned_cols=28 Identities=14% Similarity=-0.092 Sum_probs=20.3
Q ss_pred eeEEEc-CCCCeeEEcccceE-Eecccchhh
Q 028346 161 VVSAES-TAGKLVYCISKYDL-NIILFYSFW 189 (210)
Q Consensus 161 Vv~a~~-~~G~~m~~~~~~~l-~C~~~~~~~ 189 (210)
.+.++| .||..... ..... .||.|+...
T Consensus 71 p~~~~C~~CG~~~e~-~~~~~~~CP~Cgs~~ 100 (119)
T 2kdx_A 71 KVELECKDCSHVFKP-NALDYGVCEKCHSKN 100 (119)
T ss_dssp CCEEECSSSSCEECS-CCSTTCCCSSSSSCC
T ss_pred cceEEcCCCCCEEeC-CCCCCCcCccccCCC
Confidence 346789 89988644 33466 899999874
No 77
>1yez_A MM1357; MAR30, autostructure, northeast structural genomics, PSI, PR structure initiative, northeast structural genomics consort NESG; NMR {Methanosarcina mazei} SCOP: b.40.4.12
Probab=36.77 E-value=43 Score=21.70 Aligned_cols=21 Identities=29% Similarity=0.453 Sum_probs=18.8
Q ss_pred CCCEEEEEEEEEecCeEEEEE
Q 028346 76 PGSVVIARVTKVMTRMASADI 96 (210)
Q Consensus 76 vGDiViG~V~~v~~~~a~V~I 96 (210)
+||.|..+|++.+.+++.-++
T Consensus 46 PGE~V~v~i~k~kk~~~~a~~ 66 (68)
T 1yez_A 46 VGDEVRIKVERVLPKFAFASV 66 (68)
T ss_dssp TTCEEEEEEEEECSSCEEEEE
T ss_pred CCCEEEEEEEEecCCEEEEEE
Confidence 699999999999999887665
No 78
>4fu6_A PC4 and SFRS1-interacting protein; structural genomics consortium, SGC, transcription; 2.10A {Homo sapiens} PDB: 2b8a_A 2nlu_A
Probab=36.67 E-value=12 Score=28.71 Aligned_cols=18 Identities=33% Similarity=0.669 Sum_probs=15.6
Q ss_pred ccCCCCCCCCEEEEEEEE
Q 028346 126 DMHLSFRPGDIVRASVLS 143 (210)
Q Consensus 126 ~~~~~~~~GDiV~AkV~s 143 (210)
.|..-|++||+|-||+-.
T Consensus 18 ~~~~~f~~GdlVwaK~~g 35 (153)
T 4fu6_A 18 GMTRDFKPGDLIFAKMKG 35 (153)
T ss_dssp CSGGGCCTTCEEEECCTT
T ss_pred hcccCCCCCCEEEEeCCC
Confidence 577889999999999854
No 79
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=35.38 E-value=24 Score=21.59 Aligned_cols=24 Identities=0% Similarity=-0.200 Sum_probs=17.1
Q ss_pred Ec-CCCC-eeEE-cccceEEecccchh
Q 028346 165 ES-TAGK-LVYC-ISKYDLNIILFYSF 188 (210)
Q Consensus 165 ~~-~~G~-~m~~-~~~~~l~C~~~~~~ 188 (210)
.| .||+ .++- ....+|.|+.|+.-
T Consensus 7 ~CP~C~~~~l~~d~~~gelvC~~CG~v 33 (50)
T 1pft_A 7 VCPACESAELIYDPERGEIVCAKCGYV 33 (50)
T ss_dssp SCTTTSCCCEEEETTTTEEEESSSCCB
T ss_pred eCcCCCCcceEEcCCCCeEECcccCCc
Confidence 47 8988 6643 24468999999863
No 80
>1yvc_A MRR5; structure, autostructure, autoassign, northeast structural genomics, autoqf, PSI, protein structure initiative; NMR {Methanococcus maripaludis} SCOP: b.40.4.12
Probab=34.95 E-value=48 Score=21.73 Aligned_cols=21 Identities=38% Similarity=0.457 Sum_probs=18.7
Q ss_pred CCCEEEEEEEEEecCeEEEEE
Q 028346 76 PGSVVIARVTKVMTRMASADI 96 (210)
Q Consensus 76 vGDiViG~V~~v~~~~a~V~I 96 (210)
+||.|..+|++.+.+++.-++
T Consensus 48 PGE~V~v~i~k~kk~~~~a~~ 68 (70)
T 1yvc_A 48 KGSVINVKVTAVKEKFAFAER 68 (70)
T ss_dssp TTCEEEEEEEEECSSCEEEEE
T ss_pred CCCEEEEEEEEeeCCeEEEEE
Confidence 699999999999999887665
No 81
>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...
Probab=32.83 E-value=31 Score=24.00 Aligned_cols=24 Identities=4% Similarity=-0.316 Sum_probs=18.1
Q ss_pred Ec-CCCCee-EEcccceEEecccchh
Q 028346 165 ES-TAGKLV-YCISKYDLNIILFYSF 188 (210)
Q Consensus 165 ~~-~~G~~m-~~~~~~~l~C~~~~~~ 188 (210)
.| .||..+ ....-..+.|+.|++-
T Consensus 29 ~Cp~CG~~~v~r~atGiW~C~~Cg~~ 54 (83)
T 1vq8_Z 29 ACPNCGEDRVDRQGTGIWQCSYCDYK 54 (83)
T ss_dssp ECSSSCCEEEEEEETTEEEETTTCCE
T ss_pred cCCCCCCcceeccCCCeEECCCCCCE
Confidence 57 899965 4444568999999875
No 82
>2ivw_A PILP pilot protein; lipoprotein, pilus biogenesis, secretin; NMR {Neisseria meningitidis}
Probab=32.40 E-value=70 Score=23.51 Aligned_cols=28 Identities=7% Similarity=0.056 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCEE---EEEEEEEecCeEEEE
Q 028346 68 KAHGPVPEPGSVV---IARVTKVMTRMASAD 95 (210)
Q Consensus 68 ~~~~y~p~vGDiV---iG~V~~v~~~~a~V~ 95 (210)
.+..|..++|+.+ .|+|++|+++.+.+.
T Consensus 46 dG~vyrVk~G~yiG~N~GrI~~It~~~I~l~ 76 (113)
T 2ivw_A 46 EGYVYTVGVGNYLGQNYGRIESITDDSIVLN 76 (113)
T ss_dssp TTEEEEECSSEEETTTEEEEEEEETTEEEEE
T ss_pred CCcEEEEccCCEeccCCCEEEEEeCCeEEEE
Confidence 4456677788888 999999999986554
No 83
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A
Probab=31.67 E-value=1.5e+02 Score=26.65 Aligned_cols=55 Identities=18% Similarity=0.130 Sum_probs=35.2
Q ss_pred CCCCEEEEEEEEEecCeEEEEEeeeccccccCceeEEEeccccccccccccccCCCCCCCCEEEEEEEEeCC-CcceE
Q 028346 75 EPGSVVIARVTKVMTRMASADIMCVGAKSVREKFSGIIRQQDVRATEIDKVDMHLSFRPGDIVRASVLSLGD-ARAYF 151 (210)
Q Consensus 75 ~vGDiViG~V~~v~~~~a~V~I~~v~~~~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~GDiV~AkV~s~~d-~~~~~ 151 (210)
++|...-|.|+++......|.| ++.... ......|++||.|+.+|.+++. .+.+.
T Consensus 402 ~~g~~f~g~vv~l~~~~glV~v------------------~~l~~d----~~~~~~~~lGd~V~V~v~~vd~~~~~i~ 457 (469)
T 2r7d_A 402 QPERVWDAVVVDRRGAQATLLI------------------PDLAFD----VQVNTPAAPGTALQVQFADIDLPQMRVR 457 (469)
T ss_dssp CTTCCEEEEEEEEETTEEEEEE------------------GGGTEE----EEEECCCCTTCEEEEEEEEEETTTTEEE
T ss_pred CCCCEEEEEEEEEeCcEEEEEE------------------CCCCeE----EecCCcCCCCCEEEEEEEEEccCCCEEE
Confidence 5788888988776554455555 332211 0122578999999999999973 34443
No 84
>2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all beta, structural genomics, protein structure initiative; NMR {Streptomyces coelicolor}
Probab=31.17 E-value=28 Score=22.32 Aligned_cols=24 Identities=4% Similarity=-0.244 Sum_probs=18.2
Q ss_pred Ec-CCCCeeEEcccceEEec--ccchhh
Q 028346 165 ES-TAGKLVYCISKYDLNII--LFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~~~~~l~C~--~~~~~~ 189 (210)
.| .|++++.-.. ++|.|+ .|+..|
T Consensus 12 ~CP~c~~~L~~~~-~~L~C~~~~c~~~Y 38 (56)
T 2kpi_A 12 ACPACHAPLEERD-AELICTGQDCGLAY 38 (56)
T ss_dssp CCSSSCSCEEEET-TEEEECSSSCCCEE
T ss_pred eCCCCCCcceecC-CEEEcCCcCCCcEE
Confidence 47 8998876544 799999 897654
No 85
>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic initiation facto SGC, structural genomics; 1.80A {Cryptosporidium parvum iowa II}
Probab=30.51 E-value=1.6e+02 Score=21.46 Aligned_cols=24 Identities=17% Similarity=0.162 Sum_probs=18.6
Q ss_pred CCCCCCCEEEEEEEEEec-CeEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMT-RMASADI 96 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~-~~a~V~I 96 (210)
..|..|+. .|+|++..+ ..+.|..
T Consensus 27 ~~~~~~e~-~G~Vi~~lgn~~y~V~~ 51 (117)
T 2oqk_A 27 VFKEEGQE-YGQVQRMLGNGRLDAYC 51 (117)
T ss_dssp CCCCTTEE-EEEEEEEEETTEEEEEE
T ss_pred cCCCCCEE-EEEEEEEcCCCEEEEEe
Confidence 35676665 899999988 7788776
No 86
>3qby_A Hepatoma-derived growth factor-related protein 2; HDGF2, structural genomics consortium, SGC, protein binding; HET: M3L; 1.95A {Homo sapiens} SCOP: b.34.9.2 PDB: 3qj6_A* 3eae_A 1n27_A
Probab=29.76 E-value=20 Score=25.25 Aligned_cols=17 Identities=41% Similarity=0.714 Sum_probs=13.8
Q ss_pred cCCCCCCCCEEEEEEEE
Q 028346 127 MHLSFRPGDIVRASVLS 143 (210)
Q Consensus 127 ~~~~~~~GDiV~AkV~s 143 (210)
|...|++||+|-||+.+
T Consensus 2 ~p~~f~~GdlVwaK~~g 18 (94)
T 3qby_A 2 MPHAFKPGDLVFAKMKG 18 (94)
T ss_dssp CCCCCCTTCEEEECCTT
T ss_pred CCCcCccCCEEEEecCC
Confidence 34678999999999864
No 87
>2ftc_K 39S ribosomal protein L19, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}
Probab=29.73 E-value=68 Score=23.03 Aligned_cols=17 Identities=24% Similarity=0.266 Sum_probs=13.8
Q ss_pred CCCCCCCEEEEEEEEeC
Q 028346 129 LSFRPGDIVRASVLSLG 145 (210)
Q Consensus 129 ~~~~~GDiV~AkV~s~~ 145 (210)
+.|++||.|+..+.-.+
T Consensus 2 P~f~~GDtv~V~~~i~g 18 (98)
T 2ftc_K 2 PEFYVGSILRVTTADPY 18 (98)
T ss_pred CccCCCCEEEEEEEECC
Confidence 46899999999887654
No 88
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1
Probab=29.65 E-value=66 Score=26.23 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=22.4
Q ss_pred CCCCCCEEEEEEEEeCCCcceEEEeecCCceee
Q 028346 130 SFRPGDIVRASVLSLGDARAYFLSTAKNDLGVV 162 (210)
Q Consensus 130 ~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGVv 162 (210)
..++||+|.++|.++.+. .+.+.+.++--|.|
T Consensus 63 ~p~~GDiV~G~V~~v~~~-~~~V~I~~~~~g~l 94 (235)
T 2z0s_A 63 VPQAGDVVIGLIQSVGIM-NWFVDINSPYVAVL 94 (235)
T ss_dssp CCCTTCCEEEEEEEECSS-EEEEECSSSSCEEE
T ss_pred CCCCCCEEEEEEEEEeCC-eEEEEeCCCeEEEE
Confidence 568999999999999753 45666654433443
No 89
>2y4x_A PILP protein; biosynthetic protein; 1.70A {Pseudomonas aeruginosa PAO1} PDB: 2y4y_A
Probab=28.81 E-value=76 Score=22.38 Aligned_cols=27 Identities=7% Similarity=-0.069 Sum_probs=20.1
Q ss_pred CCCCCCCCCCEE---EEEEEEEecCeEEEE
Q 028346 69 AHGPVPEPGSVV---IARVTKVMTRMASAD 95 (210)
Q Consensus 69 ~~~y~p~vGDiV---iG~V~~v~~~~a~V~ 95 (210)
+..|..++|+.+ .|+|++|+++...+.
T Consensus 44 g~v~~V~~G~yiG~n~G~I~~I~~~~I~l~ 73 (93)
T 2y4x_A 44 GGVHRVRVGDYLGRNDGKVVGISEGKIDVI 73 (93)
T ss_dssp TEEEEECTTCEETTTTEEEEEEETTEEEEE
T ss_pred CCEEEEccCCEeccCCCEEEEEeCCeEEEE
Confidence 345666777777 699999999885543
No 90
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=28.45 E-value=58 Score=31.09 Aligned_cols=53 Identities=17% Similarity=0.140 Sum_probs=33.1
Q ss_pred CCCCCCEEEEEEEEeCCCcceEEEee-cCCce-----eeEEEc-CCCCeeEEc-ccceEEecc
Q 028346 130 SFRPGDIVRASVLSLGDARAYFLSTA-KNDLG-----VVSAES-TAGKLVYCI-SKYDLNIIL 184 (210)
Q Consensus 130 ~~~~GDiV~AkV~s~~d~~~~~LSt~-~~~LG-----Vv~a~~-~~G~~m~~~-~~~~l~C~~ 184 (210)
-+++||.|. |...||--+-.+... +.+-| ++-..| .||.+++.. +...+.|+.
T Consensus 368 di~iGD~V~--V~rAGdvIP~i~~vv~~~r~~~~~~~~~P~~CP~Cgs~l~~~~~~~~~rC~n 428 (671)
T 2owo_A 368 GLRIGDKVV--IRRAGDVIPQVVNVVLSERPEDTREVVFPTHCPVCGSDVERVEGEAVARCTG 428 (671)
T ss_dssp TCCBTCEEE--EEEETTTEEEEEEECGGGCCSSCBCCCCCSBCTTTCCBEEECTTCSCEEECC
T ss_pred CCCCCCEEE--EEECCCcccceeccccccCCCCCccCcCCCCCCCCCCEeEEecCCEEEECCC
Confidence 367999997 666777544334332 11111 344578 899998765 335788985
No 91
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5
Probab=28.43 E-value=1e+02 Score=20.64 Aligned_cols=24 Identities=13% Similarity=0.066 Sum_probs=18.3
Q ss_pred CCCCCCCCEE----------EEEEEEEecCeEEE
Q 028346 71 GPVPEPGSVV----------IARVTKVMTRMASA 94 (210)
Q Consensus 71 ~y~p~vGDiV----------iG~V~~v~~~~a~V 94 (210)
+...++||.| .|.|+++.++.+.+
T Consensus 15 rK~F~~GDHVkVi~G~~~getGlVV~v~~d~v~v 48 (69)
T 2do3_A 15 RKYFKMGDHVKVIAGRFEGDTGLIVRVEENFVIL 48 (69)
T ss_dssp CSSCCTTCEEEESSSTTTTCEEEEEEECSSCEEE
T ss_pred eeeccCCCeEEEeccEEcCceEEEEEEeCCEEEE
Confidence 3446889988 79999999886554
No 92
>1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=27.48 E-value=73 Score=22.82 Aligned_cols=26 Identities=27% Similarity=0.561 Sum_probs=20.3
Q ss_pred CCCCCCCEEEEEEEEeCCCcceEEEee
Q 028346 129 LSFRPGDIVRASVLSLGDARAYFLSTA 155 (210)
Q Consensus 129 ~~~~~GDiV~AkV~s~~d~~~~~LSt~ 155 (210)
+.+++||++.++|.++.+. .+.+.+.
T Consensus 17 ~~l~~G~i~~G~V~~v~~f-G~fV~l~ 42 (119)
T 1wi5_A 17 EALKPGMLLTGTVSSLEDH-GYLVDIG 42 (119)
T ss_dssp TTCCTTCEEEEEEEEECSS-EEEEECC
T ss_pred hcCCCCCEEEEEEEEEeCc-eEEEEEC
Confidence 5679999999999999764 3555554
No 93
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=27.16 E-value=54 Score=23.16 Aligned_cols=24 Identities=25% Similarity=0.220 Sum_probs=18.9
Q ss_pred CCCCCCEEEEEEEEEecCeEEEEE
Q 028346 73 VPEPGSVVIARVTKVMTRMASADI 96 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~V~I 96 (210)
.+++||.|.++|.++..+.-.+.+
T Consensus 75 ~~~vGd~V~v~V~~vd~~~~ki~L 98 (109)
T 2khj_A 75 VLSVGDEVEAKFTGVDRKNRAISL 98 (109)
T ss_dssp SCCTTCEEEEEEEEEETTTTEEEE
T ss_pred ccCCCCEEEEEEEEEECCCCEEEE
Confidence 478999999999999876544444
No 94
>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C
Probab=26.69 E-value=92 Score=25.75 Aligned_cols=31 Identities=13% Similarity=-0.017 Sum_probs=21.3
Q ss_pred CCCCCCEEEEEEEEeCCCcceEEEeecCCcee
Q 028346 130 SFRPGDIVRASVLSLGDARAYFLSTAKNDLGV 161 (210)
Q Consensus 130 ~~~~GDiV~AkV~s~~d~~~~~LSt~~~~LGV 161 (210)
..++||+|.++|.++.+. .+.+.+.++--|.
T Consensus 71 ~p~~GDiV~G~V~~v~~~-ga~VdI~~~~~Gl 101 (251)
T 2je6_I 71 YPKINDIVIGLVEDVEIY-GWVVDIKAPYKAY 101 (251)
T ss_dssp CCCTTCEEEEEEEEECSS-EEEEECSSSSCEE
T ss_pred CCCCCCEEEEEEEEEeCc-eEEEEcCCCeEEE
Confidence 468999999999998653 4555554433333
No 95
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis}
Probab=26.04 E-value=98 Score=22.67 Aligned_cols=28 Identities=21% Similarity=0.324 Sum_probs=20.4
Q ss_pred cCCCCCCCCEEEEEEEEeCCCcceEEEee
Q 028346 127 MHLSFRPGDIVRASVLSLGDARAYFLSTA 155 (210)
Q Consensus 127 ~~~~~~~GDiV~AkV~s~~d~~~~~LSt~ 155 (210)
|...+++||++.++|.++.+. .+.+.+.
T Consensus 1 ~~~~~~vG~iv~G~V~~i~~~-G~FV~l~ 28 (130)
T 2k4k_A 1 MAAKFEVGSVYTGKVTGLQAY-GAFVALD 28 (130)
T ss_dssp CCCCCCTTCEEEEEEEEEETT-EEEEEEE
T ss_pred CCCcCCCCCEEEEEEEEEeCC-eEEEEEC
Confidence 345689999999999998654 3445553
No 96
>2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=25.91 E-value=63 Score=22.64 Aligned_cols=21 Identities=24% Similarity=0.191 Sum_probs=17.4
Q ss_pred CCCCCCEEEEEEEEEecCeEE
Q 028346 73 VPEPGSVVIARVTKVMTRMAS 93 (210)
Q Consensus 73 ~p~vGDiViG~V~~v~~~~a~ 93 (210)
.+++||.|..+|.++...+..
T Consensus 60 ~~~~Gd~V~VkV~~vd~~~i~ 80 (103)
T 2eqs_A 60 VVSKGQRVKVKVLSFTGTKTS 80 (103)
T ss_dssp HCCTTCEEEEEEEEEETTEEE
T ss_pred EeCCCCEEEEEEEEEECCeeE
Confidence 478999999999999876433
No 97
>4gop_B Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}
Probab=25.85 E-value=1.6e+02 Score=21.53 Aligned_cols=18 Identities=22% Similarity=0.222 Sum_probs=12.8
Q ss_pred CCCCCCCCEEE--EEEEEeC
Q 028346 128 HLSFRPGDIVR--ASVLSLG 145 (210)
Q Consensus 128 ~~~~~~GDiV~--AkV~s~~ 145 (210)
.+.|.+||+|+ +++.++.
T Consensus 82 ~~~~~~g~yVrV~G~v~~f~ 101 (136)
T 4gop_B 82 ASEIRNNVYVRVLGTLKSFQ 101 (136)
T ss_dssp CCSCCTTCEEEEEEEEEEET
T ss_pred ccccCCCCEEEEEEEEEEeC
Confidence 46789999985 4566554
No 98
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ...
Probab=25.59 E-value=27 Score=25.79 Aligned_cols=25 Identities=4% Similarity=-0.091 Sum_probs=19.1
Q ss_pred Ec-CCCCeeEEcc-----cceEEecccchhh
Q 028346 165 ES-TAGKLVYCIS-----KYDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~~-----~~~l~C~~~~~~~ 189 (210)
.| .||..|+|.. ...+.|+.|.+.+
T Consensus 6 FCp~CgnlL~~~~~~~~~~~~~~C~~C~y~~ 36 (122)
T 1twf_I 6 FCRDCNNMLYPREDKENNRLLFECRTCSYVE 36 (122)
T ss_dssp BCSSSCCBCEEEEETTTTEEEEECSSSSCEE
T ss_pred cccccCccCcccccCcCCCCEEECCcCCCee
Confidence 47 8999998763 3579999998754
No 99
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Probab=24.83 E-value=87 Score=25.11 Aligned_cols=23 Identities=22% Similarity=0.263 Sum_probs=18.7
Q ss_pred CCCCCEEEEEEEEEecC--eEEEEE
Q 028346 74 PEPGSVVIARVTKVMTR--MASADI 96 (210)
Q Consensus 74 p~vGDiViG~V~~v~~~--~a~V~I 96 (210)
.++||+|.++|.++.+. .+.+.+
T Consensus 136 l~~GD~V~akVisi~~~~~~i~LS~ 160 (209)
T 2nn6_I 136 FRPGDIVLAKVISLGDAQSNYLLTT 160 (209)
T ss_dssp CCSSSEEEEEEEEEETTTTEEEEEC
T ss_pred cCCCCEEEEEEEEEeCCCCeEEEEE
Confidence 68999999999999875 355555
No 100
>2lc4_A PILP protein; type IV pilus, structural protein; NMR {Pseudomonas aeruginosa}
Probab=24.80 E-value=72 Score=23.36 Aligned_cols=27 Identities=7% Similarity=-0.069 Sum_probs=19.2
Q ss_pred CCCCCCCCCCEE---EEEEEEEecCeEEEE
Q 028346 69 AHGPVPEPGSVV---IARVTKVMTRMASAD 95 (210)
Q Consensus 69 ~~~y~p~vGDiV---iG~V~~v~~~~a~V~ 95 (210)
+..|..++|+.+ .|+|++|+++...+.
T Consensus 51 G~vyrVk~G~ylG~n~GrI~~It~~~I~l~ 80 (111)
T 2lc4_A 51 GGVHRVRVGDYLGRNDGKVVGISEGKIDVI 80 (111)
T ss_dssp TEEEEEETTCEETTTTEEEEEECSSEEEEE
T ss_pred CcEEEEccCCEeccCCCEEEEEeCCeEEEE
Confidence 344555666666 699999999886543
No 101
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=24.53 E-value=75 Score=23.00 Aligned_cols=28 Identities=18% Similarity=0.083 Sum_probs=21.1
Q ss_pred ccCCCCCCCCEEEEEEEEeCCCcceEEEe
Q 028346 126 DMHLSFRPGDIVRASVLSLGDARAYFLST 154 (210)
Q Consensus 126 ~~~~~~~~GDiV~AkV~s~~d~~~~~LSt 154 (210)
.+...+++||++.++|.++.+. ...+.+
T Consensus 15 ~~~~~~~vG~iv~G~V~~I~~f-GaFV~l 42 (119)
T 2cqo_A 15 TMENLPALYTIFQGEVAMVTDY-GAFIKI 42 (119)
T ss_dssp CSCCSCCTTCEEEEEEEEEETT-EEEEEC
T ss_pred hhhcccCCCCEEEEEEEEEeCc-eEEEEE
Confidence 4667789999999999998653 344444
No 102
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=24.41 E-value=41 Score=32.15 Aligned_cols=53 Identities=19% Similarity=0.107 Sum_probs=32.7
Q ss_pred CCCCCCCEEEEEEEEeCCCcceEEEee-cCCce-----eeEEEc-CCCCeeEEcccceEEecc
Q 028346 129 LSFRPGDIVRASVLSLGDARAYFLSTA-KNDLG-----VVSAES-TAGKLVYCISKYDLNIIL 184 (210)
Q Consensus 129 ~~~~~GDiV~AkV~s~~d~~~~~LSt~-~~~LG-----Vv~a~~-~~G~~m~~~~~~~l~C~~ 184 (210)
.-+++||.|. |...+|--+-.+... +.+-| ++-..| .||.++ ..+...+.|+.
T Consensus 365 ~di~iGD~V~--V~rAGdvIP~i~~vv~~~R~~~~~~~~~P~~CP~Cgs~l-~~g~~~~~C~n 424 (667)
T 1dgs_A 365 LDIRIGDWVL--VHKAGGVIPEVLRVLKERRTGKERPIRWPEACPECGHRL-VKEGKVHRCPN 424 (667)
T ss_dssp TTCBSSCEEE--EEEETTTEEEEEEECGGGCCSCCCBCCCCSBCTTTCCBC-EEETTEEECCC
T ss_pred cCCCCCCEEE--EEECCCcchhhhccccccCCCcCCcccCCCCCCCCCCCc-cCCCeEEEeCC
Confidence 3467999997 666776533333332 11111 344578 899998 44546788986
No 103
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Probab=24.27 E-value=98 Score=26.30 Aligned_cols=28 Identities=14% Similarity=0.109 Sum_probs=19.6
Q ss_pred CCCCCCEEEEEEEEeCCCcceEEEeecCC
Q 028346 130 SFRPGDIVRASVLSLGDARAYFLSTAKND 158 (210)
Q Consensus 130 ~~~~GDiV~AkV~s~~d~~~~~LSt~~~~ 158 (210)
.-++||+|.++|.++.. +.+.+.+....
T Consensus 124 iP~vGDiVIG~Vt~v~~-~~~~VdI~s~~ 151 (289)
T 2nn6_G 124 VPVKGDHVIGIVTAKSG-DIFKVDVGGSE 151 (289)
T ss_dssp CCCSSEEEEEEEEEEET-TEEEEECSSSS
T ss_pred CCCCCCEEEEEEEEEeC-cEEEEEECCCc
Confidence 34899999999999853 24555555443
No 104
>1ri0_A Hepatoma-derived growth factor; HDGF, HATH domain, PWWP domain, heparin-binding, hormone/growth factor complex; NMR {Homo sapiens} SCOP: b.34.9.2 PDB: 2b8a_A 2nlu_A
Probab=24.27 E-value=52 Score=23.78 Aligned_cols=17 Identities=24% Similarity=0.374 Sum_probs=13.6
Q ss_pred cCCCCCCCCEEEEEEEE
Q 028346 127 MHLSFRPGDIVRASVLS 143 (210)
Q Consensus 127 ~~~~~~~GDiV~AkV~s 143 (210)
....|++||+|-||+-+
T Consensus 16 ~~~~~~~GdlVwaK~kG 32 (110)
T 1ri0_A 16 RQKEYKCGDLVFAKMKG 32 (110)
T ss_dssp CSSSCCTTCEEEEEETT
T ss_pred ccCCCCCCCEEEEEeCC
Confidence 34678999999999754
No 105
>2z1c_A Hydrogenase expression/formation protein HYPC; [NIFE] hydrogenase maturation, OB-fold, chaperone, metal BIN protein; HET: PG4; 1.80A {Thermococcus kodakarensis} SCOP: b.40.14.1
Probab=24.08 E-value=1.5e+02 Score=19.99 Aligned_cols=16 Identities=25% Similarity=0.264 Sum_probs=13.0
Q ss_pred EEEEEEEecCeEEEEE
Q 028346 81 IARVTKVMTRMASADI 96 (210)
Q Consensus 81 iG~V~~v~~~~a~V~I 96 (210)
=|+|+++.++.+.|+.
T Consensus 6 P~kVvei~~~~A~vd~ 21 (75)
T 2z1c_A 6 PGKVIEVNGPVAVVDF 21 (75)
T ss_dssp CEEEEEEETTEEEEEE
T ss_pred cEEEEEECCCEEEEEc
Confidence 3789999777888888
No 106
>3irb_A Uncharacterized protein from DUF35 family; 13815350, protein with unknown function from DUF35 family, S genomics; 1.80A {Sulfolobus solfataricus}
Probab=23.83 E-value=30 Score=26.25 Aligned_cols=28 Identities=4% Similarity=-0.041 Sum_probs=21.1
Q ss_pred eeeE-EEc-CCCCeeEEcccceEEecccchhhh
Q 028346 160 GVVS-AES-TAGKLVYCISKYDLNIILFYSFWI 190 (210)
Q Consensus 160 GVv~-a~~-~~G~~m~~~~~~~l~C~~~~~~~~ 190 (210)
|.+. .+| .||....|-. -.||.|+..-+
T Consensus 43 grL~~~rC~~CG~~~~PPr---~~Cp~C~s~~~ 72 (145)
T 3irb_A 43 NKIIGSKCSKCGRIFVPAR---SYCEHCFVKIE 72 (145)
T ss_dssp TCCEEEECTTTCCEEESCC---SEETTTTEECC
T ss_pred CeEEEEEeCCCCcEEcCch---hhCcCCCCCce
Confidence 4444 578 8999998854 46999998765
No 107
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens}
Probab=23.79 E-value=1.5e+02 Score=21.86 Aligned_cols=37 Identities=14% Similarity=0.286 Sum_probs=27.0
Q ss_pred CeEEEecCCCCCCCCCCCCEE----------EEEEEEEecC--eEEEEE
Q 028346 60 PTVEVTGHKAHGPVPEPGSVV----------IARVTKVMTR--MASADI 96 (210)
Q Consensus 60 ~~i~V~p~~~~~y~p~vGDiV----------iG~V~~v~~~--~a~V~I 96 (210)
..+.|....=...+|++|+.| .|+..++..+ .+.|.+
T Consensus 57 ~~v~v~q~~LETViP~~g~~V~Iv~G~~rG~~g~L~~id~~~~~~~V~l 105 (127)
T 2ckk_A 57 DKLKLDQTHLETVIPAPGKRILVLNGGYRGNEGTLESINEKTFSATIVI 105 (127)
T ss_dssp CEEEEEGGGEEECCCCTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEEE
T ss_pred CEEEEchHHcEEecCCCCCEEEEEecccCCcEEEEEEEeCCCcEEEEEE
Confidence 466776543235789999998 7888888866 677777
No 108
>2l89_A PWWP domain-containing protein 1; histone binding, protein binding; NMR {Schizosaccharomyces pombe}
Probab=23.42 E-value=32 Score=24.74 Aligned_cols=16 Identities=13% Similarity=0.054 Sum_probs=13.3
Q ss_pred CCCCCCCEEEEEEEEe
Q 028346 129 LSFRPGDIVRASVLSL 144 (210)
Q Consensus 129 ~~~~~GDiV~AkV~s~ 144 (210)
..|++||+|-||+-+.
T Consensus 4 ~~~~~GdlVwaK~~gy 19 (108)
T 2l89_A 4 DRLNFGDRILVKAPGY 19 (108)
T ss_dssp CCCCTTEEEEEECSSS
T ss_pred CcccCCCEEEEEeCCc
Confidence 5689999999998753
No 109
>3u50_C Telomerase-associated protein 82; TEB1, processivity factor, DNA BIND protein; 2.50A {Tetrahymena thermophila}
Probab=23.20 E-value=1.2e+02 Score=23.81 Aligned_cols=41 Identities=15% Similarity=0.012 Sum_probs=29.2
Q ss_pred EEEEEEEeCCCcceEEEeecCCceeeEEEc-CCCCeeEEcccceEEecccchh
Q 028346 137 VRASVLSLGDARAYFLSTAKNDLGVVSAES-TAGKLVYCISKYDLNIILFYSF 188 (210)
Q Consensus 137 V~AkV~s~~d~~~~~LSt~~~~LGVv~a~~-~~G~~m~~~~~~~l~C~~~~~~ 188 (210)
|+|.|..+... -.-.+.-| .|..-++..+.....|+.|...
T Consensus 27 v~atI~~Ik~d-----------~~~~Y~ACp~CnKKV~~~~~g~~~CekC~~~ 68 (172)
T 3u50_C 27 VYGNLVSIQMK-----------NKLYYYRCTCQGKSVLKYHGDSFFCESCQQF 68 (172)
T ss_dssp EEEEEECCCCS-----------SCCEEEECTTSCCCEEEETTTEEEETTTTEE
T ss_pred EEEEEEEEcCC-----------CcEEehhchhhCCEeeeCCCCeEECCCCCCC
Confidence 67777776432 13467778 7999888555578999999763
No 110
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=22.88 E-value=39 Score=24.56 Aligned_cols=25 Identities=8% Similarity=-0.118 Sum_probs=19.2
Q ss_pred Ec-CCCCeeEEccc-----ceEEecccchhh
Q 028346 165 ES-TAGKLVYCISK-----YDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~~~-----~~l~C~~~~~~~ 189 (210)
.| .||+.|+|... ..+.|+.|...+
T Consensus 6 FCp~Cgn~L~~~~~~~~~~~~~~C~~C~y~~ 36 (113)
T 3h0g_I 6 YCIECNNMLYPREDKVDRVLRLACRNCDYSE 36 (113)
T ss_dssp CCSSSCCCCEECCCTTTCCCCEECSSSCCEE
T ss_pred eCcCCCCEeeEcccCCCCeeEEECCCCCCeE
Confidence 47 89999988753 269999998754
No 111
>3tbo_A Zinc finger, CDGSH-type domain protein; iron-sulfur, metal binding protein; 1.50A {Pyrobaculum calidifontis}
Probab=22.70 E-value=69 Score=20.98 Aligned_cols=25 Identities=8% Similarity=-0.035 Sum_probs=14.9
Q ss_pred EeCCCcceEEEeecCCceeeEEEcCCCCe
Q 028346 143 SLGDARAYFLSTAKNDLGVVSAESTAGKL 171 (210)
Q Consensus 143 s~~d~~~~~LSt~~~~LGVv~a~~~~G~~ 171 (210)
.+.+.+++.+.+.+ .-++.|+||..
T Consensus 6 ~v~~ngP~~v~~e~----~~~~lC~CG~S 30 (60)
T 3tbo_A 6 RAIENGPYEVKIGG----RAIYLCRCGHS 30 (60)
T ss_dssp EECTTSCEEEEC-------CEEECCSSCC
T ss_pred EEeCCCCEEEEECC----cEEEEEECCCC
Confidence 34445678887543 33499999864
No 112
>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1
Probab=22.65 E-value=52 Score=22.18 Aligned_cols=23 Identities=9% Similarity=0.076 Sum_probs=16.2
Q ss_pred EcCCCCeeE-EcccceEEecccchh
Q 028346 165 ESTAGKLVY-CISKYDLNIILFYSF 188 (210)
Q Consensus 165 ~~~~G~~m~-~~~~~~l~C~~~~~~ 188 (210)
.|.||...+ ..+...-+|| |+++
T Consensus 6 ~C~C~~~~~~~~~~kT~~C~-CG~~ 29 (71)
T 1gh9_A 6 RCDCGRALYSREGAKTRKCV-CGRT 29 (71)
T ss_dssp EETTSCCEEEETTCSEEEET-TTEE
T ss_pred ECCCCCEEEEcCCCcEEECC-CCCe
Confidence 456888764 3455689999 9875
No 113
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=22.64 E-value=20 Score=27.10 Aligned_cols=25 Identities=4% Similarity=-0.120 Sum_probs=19.5
Q ss_pred Ec-CCCCeeEEccc-----ceEEecccchhh
Q 028346 165 ES-TAGKLVYCISK-----YDLNIILFYSFW 189 (210)
Q Consensus 165 ~~-~~G~~m~~~~~-----~~l~C~~~~~~~ 189 (210)
.| .||..|+|... ..+.|+.|....
T Consensus 26 FCPeCgNmL~pked~~~~~l~~~CrtCgY~~ 56 (133)
T 3qt1_I 26 FCRDCNNMLYPREDKENNRLLFECRTCSYVE 56 (133)
T ss_dssp BCTTTCCBCBCCBCTTTCCBCCBCSSSCCBC
T ss_pred eCCCCCCEeeECccCCCceeEEECCCCCCcE
Confidence 47 89999998753 269999998754
No 114
>1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PS protein structure initiative, joint center for structural G hydrolase; HET: MSE; 2.20A {Escherichia coli} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A
Probab=22.51 E-value=30 Score=28.89 Aligned_cols=27 Identities=7% Similarity=-0.010 Sum_probs=20.7
Q ss_pred Ec-CCCCeeEEcc-cceEEecccchhhhH
Q 028346 165 ES-TAGKLVYCIS-KYDLNIILFYSFWIF 191 (210)
Q Consensus 165 ~~-~~G~~m~~~~-~~~l~C~~~~~~~~~ 191 (210)
.| .||.++.... ...+.|+.|+...++
T Consensus 109 fC~~CG~~~~~~~~~~~~~C~~C~~~~yp 137 (269)
T 1vk6_A 109 YCGYCGHEMYPSKTEWAMLCSHCRERYYP 137 (269)
T ss_dssp BCTTTCCBEEECSSSSCEEESSSSCEECC
T ss_pred ccccCCCcCccCCCceeeeCCCCCCEecC
Confidence 57 8999986553 348999999887664
No 115
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=22.08 E-value=93 Score=19.75 Aligned_cols=24 Identities=17% Similarity=0.088 Sum_probs=18.6
Q ss_pred CCCCCCEE----------EEEEEEEecCeEEEEE
Q 028346 73 VPEPGSVV----------IARVTKVMTRMASADI 96 (210)
Q Consensus 73 ~p~vGDiV----------iG~V~~v~~~~a~V~I 96 (210)
.+++||.| .|+|.++..+.+.|.+
T Consensus 7 ~f~~GD~V~V~~Gpf~g~~G~V~evd~e~v~V~v 40 (59)
T 2e6z_A 7 GFQPGDNVEVCEGELINLQGKILSVDGNKITIMP 40 (59)
T ss_dssp SCCTTSEEEECSSTTTTCEEEECCCBTTEEEEEE
T ss_pred cCCCCCEEEEeecCCCCCEEEEEEEeCCEEEEEE
Confidence 35677777 7999999988666666
No 116
>1h3z_A Hypothetical 62.8 kDa protein C215.07C; nuclear protein, PWWP, chromatin, beta-barrel; NMR {Schizosaccharomyces pombe} SCOP: b.34.9.2
Probab=21.52 E-value=54 Score=23.37 Aligned_cols=15 Identities=20% Similarity=0.470 Sum_probs=12.6
Q ss_pred CCCCCCCEEEEEEEE
Q 028346 129 LSFRPGDIVRASVLS 143 (210)
Q Consensus 129 ~~~~~GDiV~AkV~s 143 (210)
..|++||+|-||+-+
T Consensus 5 ~~~~~GdlVwaK~~g 19 (109)
T 1h3z_A 5 VNYKPGMRVLTKMSG 19 (109)
T ss_dssp CCCCTTCEEEEEETT
T ss_pred ccCCCCCEEEEEeCC
Confidence 568999999999854
No 117
>4av2_M PILP protein, type IV pilus biogenesis and competence protein P; protein transport, outer membrane protein; 26.00A {Neisseria meningitidis MC58}
Probab=21.47 E-value=62 Score=25.61 Aligned_cols=30 Identities=7% Similarity=0.067 Sum_probs=22.6
Q ss_pred EecCCCCCCCCCCCCEE---EEEEEEEecCeEEE
Q 028346 64 VTGHKAHGPVPEPGSVV---IARVTKVMTRMASA 94 (210)
Q Consensus 64 V~p~~~~~y~p~vGDiV---iG~V~~v~~~~a~V 94 (210)
|.| .+..|..++|+.+ .|+|++|+++.+.+
T Consensus 111 v~~-dg~v~~V~~G~ylG~n~GrI~~I~~~~i~l 143 (181)
T 4av2_M 111 IEA-EGYVYTVGVGNYLGQNYGRIESITDDSIVL 143 (181)
T ss_dssp EEE-TTEEEEECSSEEETTTTEEEEEEETTEEEE
T ss_pred Eec-CCCEEEEccCCEeccCCcEEEEEeCCEEEE
Confidence 454 3456778888888 89999999987554
No 118
>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A
Probab=21.15 E-value=30 Score=27.02 Aligned_cols=24 Identities=4% Similarity=-0.270 Sum_probs=16.1
Q ss_pred EEEc-CCCCeeEEcccceEEecccchh
Q 028346 163 SAES-TAGKLVYCISKYDLNIILFYSF 188 (210)
Q Consensus 163 ~a~~-~~G~~m~~~~~~~l~C~~~~~~ 188 (210)
.-+| .||....+-- -. .||.|++.
T Consensus 138 ~~~C~~CG~i~~~~~-p~-~CP~Cg~~ 162 (170)
T 3pwf_A 138 VYICPICGYTAVDEA-PE-YCPVCGAP 162 (170)
T ss_dssp EEECTTTCCEEESCC-CS-BCTTTCCB
T ss_pred eeEeCCCCCeeCCCC-CC-CCCCCCCC
Confidence 4469 8998765221 12 89999974
No 119
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=20.87 E-value=82 Score=22.45 Aligned_cols=25 Identities=20% Similarity=0.171 Sum_probs=19.0
Q ss_pred CCCCCCCEEEEEEEEEecCeEEEEE
Q 028346 72 PVPEPGSVVIARVTKVMTRMASADI 96 (210)
Q Consensus 72 y~p~vGDiViG~V~~v~~~~a~V~I 96 (210)
-.+++||.|.++|.++....-.+++
T Consensus 74 ~~~~vGd~V~vkV~~vd~~~~rI~l 98 (115)
T 2khi_A 74 KVVNVGDVVEVMVLDIDEERRRISL 98 (115)
T ss_dssp TTCCTTCEEEEEEEEEETTTTEEEE
T ss_pred cEECCCCEEEEEEEEEECCCCEEEE
Confidence 3579999999999999874334444
No 120
>3mea_A SAGA-associated factor 29 homolog; structural genomics consortium, SGC, nucleus, transcription, transcription regulation, chromosomal protein, DNA-binding; HET: M3L; 1.26A {Homo sapiens} PDB: 3meu_A* 3met_A* 3me9_A* 3mev_A* 3lx7_A 3mew_A
Probab=20.70 E-value=3e+02 Score=21.65 Aligned_cols=86 Identities=17% Similarity=0.100 Sum_probs=43.9
Q ss_pred CCCCCCCCEEEEEEEEEec-CeEEEEE-eeeccc---------------cccCceeEEEeccccccccccccccCCCCCC
Q 028346 71 GPVPEPGSVVIARVTKVMT-RMASADI-MCVGAK---------------SVREKFSGIIRQQDVRATEIDKVDMHLSFRP 133 (210)
Q Consensus 71 ~y~p~vGDiViG~V~~v~~-~~a~V~I-~~v~~~---------------~l~~~~~Gii~~s~v~~~~~d~~~~~~~~~~ 133 (210)
.+..++||.|-++|..... ..|++-. ..+.+. ....+..-+|++-+.++... .+....|..
T Consensus 42 ~~~~~~G~~VAakvk~~~~~~~WILa~Vv~~~~~~~rYeV~D~d~eg~~~~~~s~~~IIPLP~~~a~p~--t~~~~~f~~ 119 (180)
T 3mea_A 42 DYVARPGDKVAARVKAVDGDEQWILAEVVSYSHATNKYEVDDIDEEGKERHTLSRRRVIPLPQWKANPE--TDPEALFQK 119 (180)
T ss_dssp TCCCCTTCEEEEEEECCC--EEEEEEEEEEEETTTTEEEEEECCTTCCEEEEEEGGGEEECCSBBCCTT--TCGGGSCCT
T ss_pred CcccCCCCEEEEEcCCCCCCccEEEEEEEEEcCCCCEEEEecCCCCCceeEEeCHHHEEECCCcCCCcc--cCccccCCC
Confidence 4677888888888764322 3455433 222210 11223344666654332110 123456999
Q ss_pred CCEEEE-----------EEEEeCCC--cceEEEeecCC
Q 028346 134 GDIVRA-----------SVLSLGDA--RAYFLSTAKND 158 (210)
Q Consensus 134 GDiV~A-----------kV~s~~d~--~~~~LSt~~~~ 158 (210)
|+.|.| .|.+.-.. +.|.|...+++
T Consensus 120 G~~VLAlYP~TT~FY~A~V~~~p~~~~~~y~L~FEdde 157 (180)
T 3mea_A 120 EQLVLALYPQTTCFYRALIHAPPQRPQDDYSVLFEDTS 157 (180)
T ss_dssp TCEEEEECTTSSEEEEEEEEECCSSTTCCEEEEEBCTT
T ss_pred CCEEEEeCCCCceeeEEEEecCCCCCCCcEEEEEcCCC
Confidence 999975 56665221 34555554443
No 121
>1khc_A DNA cytosine-5 methyltransferase 3B2; five beta-sheets barrel followed by five-helix bundle; HET: DNA; 1.80A {Mus musculus} SCOP: b.34.9.2 PDB: 3flg_A* 3qkj_A*
Probab=20.66 E-value=64 Score=24.59 Aligned_cols=17 Identities=24% Similarity=0.331 Sum_probs=13.7
Q ss_pred cCCCCCCCCEEEEEEEE
Q 028346 127 MHLSFRPGDIVRASVLS 143 (210)
Q Consensus 127 ~~~~~~~GDiV~AkV~s 143 (210)
....|++||+|-||+-+
T Consensus 8 ~~~~~~~GDlVWaKvkG 24 (147)
T 1khc_A 8 DDKEFGIGDLVWGKIKG 24 (147)
T ss_dssp SSSSCCTTCEEEEEETT
T ss_pred CCccCcCCCEEEEecCC
Confidence 34678999999999854
No 122
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...
Probab=20.30 E-value=66 Score=23.93 Aligned_cols=38 Identities=21% Similarity=0.131 Sum_probs=23.3
Q ss_pred EEEEEEEecCeEEEEEeeecc-ccccCceeEEEeccccc
Q 028346 81 IARVTKVMTRMASADIMCVGA-KSVREKFSGIIRQQDVR 118 (210)
Q Consensus 81 iG~V~~v~~~~a~V~I~~v~~-~~l~~~~~Gii~~s~v~ 118 (210)
.|+|++|.+....|-+-.++- ++-....++-||+|++.
T Consensus 60 ~GkV~~V~~k~~~V~VEgvn~kK~~Gg~~e~pIh~SNV~ 98 (120)
T 1vq8_T 60 EGEVINVDLDKAVIHVEDVTLEKTDGEEVPRPLDTSNVR 98 (120)
T ss_dssp EEEEEEEETTTTEEEETTCEEECSSSCEEECCBCGGGEE
T ss_pred EEEEEEEECCCCEEEEeCeEeEcCCCCEEEeeechHHEE
Confidence 799999987776665533311 11112456667777765
No 123
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A
Probab=20.12 E-value=33 Score=29.42 Aligned_cols=14 Identities=14% Similarity=0.040 Sum_probs=11.9
Q ss_pred eEEecccchhhhHH
Q 028346 179 DLNIILFYSFWIFC 192 (210)
Q Consensus 179 ~l~C~~~~~~~~~~ 192 (210)
-..|..|+++|-||
T Consensus 296 f~~C~~Cg~~w~fc 309 (309)
T 1pqv_S 296 FCTCEACGNRWKFS 309 (309)
T ss_pred EEEeCCCCCceecC
Confidence 36899999999876
Done!