Query psy3654
Match_columns 140
No_of_seqs 153 out of 1078
Neff 5.5
Searched_HMMs 29240
Date Fri Aug 16 22:14:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3654.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3654hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3aqq_A Calcium-regulated heat 100.0 2.4E-35 8.2E-40 223.7 9.0 110 29-138 33-143 (147)
2 3cam_A Cold-shock domain famil 99.9 1.6E-23 5.5E-28 139.4 8.7 65 58-125 1-67 (67)
3 1x65_A UNR protein; cell-free 99.9 1.9E-24 6.4E-29 151.5 4.3 81 57-139 7-87 (89)
4 3a0j_A Cold shock protein; OB- 99.9 5.8E-23 2E-27 138.7 9.5 69 58-128 1-71 (73)
5 3i2z_B RNA chaperone, negative 99.9 7E-23 2.4E-27 137.6 9.2 65 58-125 5-71 (71)
6 1c9o_A CSPB, cold-shock protei 99.9 6.1E-23 2.1E-27 136.0 8.1 64 58-125 1-66 (66)
7 2ytx_A Cold shock domain-conta 99.9 1.6E-22 5.5E-27 143.4 9.3 79 56-139 16-95 (97)
8 2k5n_A Putative cold-shock pro 99.9 2.9E-22 9.8E-27 136.0 9.3 70 57-130 1-70 (74)
9 3ulj_A LIN28B, DNA-binding pro 99.9 2E-22 6.8E-27 141.6 6.8 72 56-130 6-86 (90)
10 2kcm_A Cold shock domain famil 99.9 3.8E-22 1.3E-26 135.4 7.6 66 59-128 1-69 (74)
11 1g6p_A Cold shock protein TMCS 99.9 3E-22 1E-26 132.7 6.6 64 59-126 1-66 (66)
12 1h95_A CSD, Y-box binding prot 99.9 3.3E-22 1.1E-26 136.9 6.8 66 57-125 7-78 (79)
13 1wfq_A UNR protein; beta-barre 99.9 1.8E-21 6.3E-26 136.2 9.3 70 57-129 17-87 (89)
14 2lss_A Cold shock-like protein 99.8 4.1E-23 1.4E-27 138.4 0.0 64 58-124 4-69 (70)
15 2yty_A Cold shock domain-conta 99.8 2.8E-21 9.7E-26 134.9 7.0 72 53-128 13-85 (88)
16 3ts2_A Protein LIN-28 homolog 99.8 4.6E-20 1.6E-24 139.2 6.6 72 55-129 6-86 (148)
17 2ytv_A Cold shock domain-conta 99.8 5.1E-19 1.7E-23 121.2 6.1 67 56-126 6-74 (79)
18 2bh8_A 1B11; transcription, mo 99.6 1.1E-15 3.6E-20 108.4 7.2 58 55-112 13-74 (101)
19 1a62_A RHO; transcription term 97.1 0.0015 5.1E-08 47.8 6.8 69 58-130 50-125 (130)
20 2id0_A Exoribonuclease 2; RNAs 96.1 0.01 3.5E-07 53.1 6.9 64 57-129 20-83 (644)
21 2k52_A Uncharacterized protein 95.7 0.049 1.7E-06 35.7 7.0 69 55-130 5-76 (80)
22 2cqo_A Nucleolar protein of 40 95.4 0.07 2.4E-06 37.8 7.7 56 53-111 20-82 (119)
23 2khi_A 30S ribosomal protein S 94.3 0.38 1.3E-05 33.5 8.9 58 52-112 27-91 (115)
24 2b8k_G B16, DNA-directed RNA p 94.1 0.14 4.8E-06 40.0 6.9 56 52-111 80-151 (215)
25 3go5_A Multidomain protein wit 93.6 0.35 1.2E-05 39.2 8.6 65 52-120 66-133 (285)
26 1wi5_A RRP5 protein homolog; S 93.3 1.4 4.8E-05 30.6 10.5 57 52-112 18-83 (119)
27 2eqs_A ATP-dependent RNA helic 93.2 0.35 1.2E-05 33.1 7.0 57 53-112 10-76 (103)
28 1y14_B B16, RPB7, DNA-directed 93.2 0.19 6.5E-06 37.4 6.0 56 52-111 80-151 (171)
29 2k4k_A GSP13, general stress p 93.1 0.2 6.8E-06 35.9 5.8 56 53-111 5-66 (130)
30 1luz_A Protein K3, protein K2; 92.1 0.38 1.3E-05 32.3 5.7 55 53-112 9-72 (88)
31 2khj_A 30S ribosomal protein S 92.0 0.21 7.1E-06 34.4 4.5 57 53-112 29-91 (109)
32 3aev_A Translation initiation 91.9 0.49 1.7E-05 38.2 7.2 55 55-112 11-73 (275)
33 3h0g_G DNA-directed RNA polyme 91.7 0.24 8.1E-06 37.0 4.9 66 52-121 81-162 (172)
34 4ayb_E DNA-directed RNA polyme 91.7 0.99 3.4E-05 33.5 8.3 56 52-111 78-150 (180)
35 2bx2_L Ribonuclease E, RNAse E 90.8 1.5 5.1E-05 38.6 9.6 66 54-120 44-124 (517)
36 1go3_E DNA-directed RNA polyme 89.9 1.5 5.3E-05 32.6 8.0 57 52-112 78-151 (187)
37 2c35_B Human RPB7, DNA-directe 89.7 0.45 1.5E-05 35.2 4.7 56 52-111 78-151 (172)
38 3l0o_A Transcription terminati 89.7 0.39 1.3E-05 41.5 4.9 65 58-126 57-127 (427)
39 3go5_A Multidomain protein wit 89.4 0.67 2.3E-05 37.5 5.9 55 53-112 150-205 (285)
40 2a19_A EIF-2- alpha, eukaryoti 88.2 1.2 4E-05 33.6 6.2 55 55-112 15-77 (175)
41 1kl9_A Eukaryotic translation 87.0 1.1 3.7E-05 34.1 5.4 56 54-112 14-77 (182)
42 1q8k_A Eukaryotic translation 86.4 1.6 5.6E-05 35.8 6.5 55 55-112 13-75 (308)
43 2vnu_D Exosome complex exonucl 85.8 1.1 3.8E-05 40.8 5.7 50 55-109 29-81 (760)
44 3ice_A Transcription terminati 84.7 0.84 2.9E-05 39.3 4.1 66 57-126 52-123 (422)
45 2l55_A SILB,silver efflux prot 84.0 5 0.00017 26.6 7.0 65 59-129 6-78 (82)
46 2wp8_J Exosome complex exonucl 82.5 1.9 6.6E-05 40.5 5.9 50 55-109 246-298 (977)
47 2qcp_X Cation efflux system pr 80.8 7 0.00024 25.7 6.7 62 58-124 9-78 (80)
48 3cw2_C Translation initiation 80.4 1.6 5.6E-05 34.8 4.1 56 54-112 10-73 (266)
49 2vb2_X Copper protein, cation 80.3 7.1 0.00024 26.1 6.7 62 58-124 17-86 (88)
50 1hh2_P NUSA, N utilization sub 75.0 6.3 0.00022 32.8 6.2 53 55-111 134-186 (344)
51 2je6_I RRP4, exosome complex R 72.7 8.3 0.00028 30.5 6.2 55 54-111 73-136 (251)
52 3bzc_A TEX; helix-turn-helix, 71.3 3.1 0.00011 38.3 3.8 58 52-112 651-714 (785)
53 2id0_A Exoribonuclease 2; RNAs 67.6 10 0.00034 33.8 6.2 55 55-112 558-633 (644)
54 3psi_A Transcription elongatio 67.3 12 0.00041 36.1 7.0 57 52-111 899-962 (1219)
55 4aid_A Polyribonucleotide nucl 64.6 1.4 4.7E-05 40.3 0.0 57 53-112 635-697 (726)
56 3cdi_A Polynucleotide phosphor 63.0 1.5 5.2E-05 39.9 0.0 56 53-112 625-687 (723)
57 2z0s_A Probable exosome comple 59.8 21 0.00072 27.6 6.1 57 53-112 64-130 (235)
58 2ba0_A Archeal exosome RNA bin 58.8 33 0.0011 26.4 7.1 57 53-112 55-118 (229)
59 3m7n_A Putative uncharacterize 56.1 19 0.00064 26.7 5.0 51 56-109 58-124 (179)
60 3d2w_A TAR DNA-binding protein 54.2 8.2 0.00028 24.7 2.5 13 68-80 46-58 (89)
61 1k0r_A NUSA; two component arr 53.0 24 0.00081 29.7 5.7 62 54-117 129-196 (366)
62 3r27_A HnRNP L, heterogeneous 52.7 14 0.00048 25.0 3.6 19 61-79 46-66 (100)
63 2bh8_A 1B11; transcription, mo 49.2 40 0.0014 22.6 5.4 40 52-94 58-97 (101)
64 1e3p_A Guanosine pentaphosphat 49.1 3 0.0001 38.2 -0.5 56 53-112 665-731 (757)
65 2wbr_A GW182, gawky, LD47780P; 48.6 11 0.00036 25.6 2.3 21 59-79 30-52 (89)
66 2ckz_B C25, DNA-directed RNA p 48.5 65 0.0022 24.7 7.2 56 52-110 78-153 (218)
67 3psf_A Transcription elongatio 46.8 4.1 0.00014 38.6 0.0 56 53-111 903-965 (1030)
68 3ayh_B DNA-directed RNA polyme 46.6 63 0.0021 24.3 6.7 55 52-110 78-157 (203)
69 2xnq_A Nuclear polyadenylated 45.6 11 0.00037 24.4 2.0 20 60-79 47-66 (97)
70 2cpd_A Apobec-1 stimulating pr 42.9 12 0.00041 23.9 1.9 19 61-79 42-60 (99)
71 2ja9_A Exosome complex exonucl 42.6 84 0.0029 23.3 6.8 55 54-111 6-66 (175)
72 1sjq_A Polypyrimidine tract-bi 41.2 16 0.00056 24.9 2.4 12 68-79 50-61 (105)
73 2nn6_I 3'-5' exoribonuclease C 36.9 97 0.0033 23.4 6.5 56 53-111 79-150 (209)
74 2krb_A Eukaryotic translation 35.4 25 0.00087 21.5 2.5 11 69-79 46-56 (81)
75 1wex_A Hypothetical protein (r 35.3 22 0.00077 23.6 2.3 12 68-79 49-60 (104)
76 2jvo_A Nucleolar protein 3; nu 35.2 4.2 0.00014 27.2 -1.4 10 70-79 65-74 (108)
77 4hti_A Receptor-type tyrosine- 35.0 12 0.00042 26.0 0.9 21 99-122 50-70 (99)
78 2lkz_A RNA-binding protein 5; 34.7 17 0.00059 23.8 1.7 12 68-79 51-62 (95)
79 2dnq_A RNA-binding protein 4B; 33.6 17 0.00059 22.7 1.5 19 61-79 33-51 (90)
80 2m0o_A PHD finger protein 1; t 33.1 1.1E+02 0.0037 20.4 8.5 40 53-93 37-76 (79)
81 3hfo_A SSR3341 protein; HFQ, S 32.7 74 0.0025 20.6 4.4 37 52-91 27-63 (70)
82 2ylb_A Protein HFQ; RNA-bindin 31.6 35 0.0012 22.2 2.7 35 53-92 28-62 (74)
83 2asb_A Transcription elongatio 31.4 1.2E+02 0.004 24.2 6.3 63 54-118 6-74 (251)
84 2nlw_A Eukaryotic translation 31.0 31 0.0011 22.3 2.4 12 69-80 60-71 (105)
85 2wg5_A General control protein 30.9 96 0.0033 21.1 5.1 49 55-105 35-83 (109)
86 2dgu_A Heterogeneous nuclear r 30.7 23 0.0008 22.7 1.8 20 60-79 35-54 (103)
87 3i4o_A Translation initiation 30.1 1.2E+02 0.004 19.9 6.0 52 57-110 14-67 (79)
88 2kvi_A Nuclear polyadenylated 29.8 14 0.00047 23.6 0.4 19 61-79 36-54 (96)
89 2lxi_A RNA-binding protein 10; 28.7 26 0.0009 22.3 1.7 12 68-79 42-53 (91)
90 2hzc_A Splicing factor U2AF 65 28.6 34 0.0011 20.9 2.2 13 67-79 50-62 (87)
91 2d9o_A DNAJ (HSP40) homolog, s 28.6 48 0.0016 22.0 3.1 13 67-79 51-63 (100)
92 3nyy_A Putative glycyl-glycine 28.4 61 0.0021 25.4 4.1 48 58-105 145-198 (252)
93 2dgx_A KIAA0430 protein; RRM d 28.1 28 0.00096 22.1 1.8 10 70-79 52-61 (96)
94 3h43_A Proteasome-activating n 27.0 1.2E+02 0.0042 19.8 4.9 48 55-104 16-63 (85)
95 3hfn_A ASL2047 protein; HFQ, S 26.9 88 0.003 20.3 4.0 37 52-91 29-65 (72)
96 2a3j_A U1 small nuclear ribonu 26.7 36 0.0012 23.5 2.2 12 68-79 70-81 (127)
97 2y90_A Protein HFQ; RNA-bindin 26.7 43 0.0015 23.4 2.6 36 53-93 28-63 (104)
98 1ah9_A IF1, initiation factor 26.2 1.1E+02 0.0039 18.9 4.4 50 58-109 7-58 (71)
99 1x5p_A Negative elongation fac 25.9 42 0.0014 21.2 2.3 13 67-79 46-58 (97)
100 2dnp_A RNA-binding protein 14; 25.5 34 0.0012 21.2 1.8 20 60-79 33-52 (90)
101 2cq2_A Hypothetical protein LO 25.4 43 0.0015 23.1 2.4 12 68-79 61-72 (114)
102 1wf0_A TDP-43, TAR DNA-binding 25.0 36 0.0012 21.0 1.8 13 68-80 40-52 (88)
103 4a8x_A RNA-binding protein wit 24.8 37 0.0013 20.6 1.9 11 69-79 46-56 (88)
104 1kq1_A HFQ, HOST factor for Q 24.4 41 0.0014 22.1 2.0 36 53-92 26-61 (77)
105 2cq1_A PTB-like protein L; RRM 24.2 47 0.0016 21.9 2.4 13 67-79 48-60 (101)
106 3sb2_A Protein HFQ; SM-like, R 24.1 54 0.0019 21.7 2.6 35 53-92 27-61 (79)
107 1s79_A Lupus LA protein; RRM, 23.5 33 0.0011 22.6 1.5 12 68-79 50-61 (103)
108 3ns6_A Eukaryotic translation 23.2 33 0.0011 22.1 1.4 11 69-79 53-63 (100)
109 2m2b_A RNA-binding protein 10; 22.7 24 0.00082 23.9 0.7 12 68-79 65-76 (131)
110 2e5j_A Methenyltetrahydrofolat 22.6 63 0.0022 20.3 2.7 14 66-79 52-65 (97)
111 3cp3_A Uncharacterized protein 22.4 1.8E+02 0.0061 19.8 5.3 28 81-110 55-84 (148)
112 1x4f_A Matrin 3; structural ge 22.3 55 0.0019 22.3 2.5 12 68-79 60-71 (112)
113 3fkh_A Putative pyridoxamine 5 22.3 1.9E+02 0.0065 20.1 5.5 50 58-111 21-75 (138)
114 1j6q_A Cytochrome C maturation 22.0 2.2E+02 0.0076 20.4 6.5 68 56-126 39-106 (136)
115 3p5t_L Cleavage and polyadenyl 22.0 24 0.00084 22.1 0.5 11 69-79 44-54 (90)
116 3slu_A M23 peptidase domain pr 21.9 76 0.0026 26.3 3.7 48 58-105 262-313 (371)
117 1fj7_A Nucleolin RBD1, protein 21.8 43 0.0015 21.1 1.8 13 67-79 55-67 (101)
118 2cpj_A Non-POU domain-containi 21.8 60 0.002 20.4 2.5 14 67-80 48-61 (99)
119 3our_B EIIA, phosphotransferas 21.8 95 0.0033 23.6 3.9 43 59-103 78-128 (183)
120 1x4e_A RNA binding motif, sing 21.6 44 0.0015 20.3 1.7 11 69-79 46-56 (85)
121 1nu4_A U1A RNA binding domain; 21.5 53 0.0018 20.4 2.1 11 69-79 50-60 (97)
122 1uwv_A 23S rRNA (uracil-5-)-me 21.2 3.4E+02 0.012 22.1 8.7 61 57-130 15-75 (433)
123 1jmt_A Splicing factor U2AF 35 21.0 38 0.0013 22.3 1.4 11 69-79 67-77 (104)
124 1iqt_A AUF1, heterogeneous nuc 20.6 42 0.0014 19.8 1.4 13 68-80 39-51 (75)
125 1x4d_A Matrin 3; structural ge 20.5 44 0.0015 22.3 1.7 21 59-79 39-61 (102)
126 2mss_A Protein (musashi1); RNA 20.4 45 0.0015 19.7 1.5 11 69-79 40-50 (75)
127 2dnl_A Cytoplasmic polyadenyla 20.4 43 0.0015 22.0 1.6 12 68-79 50-61 (114)
128 2rf4_A DNA-directed RNA polyme 20.4 2.2E+02 0.0074 21.5 5.8 57 52-111 126-200 (214)
129 2fc9_A NCL protein; structure 20.2 55 0.0019 20.6 2.0 20 60-79 39-62 (101)
130 4f25_A Polyadenylate-binding p 20.2 30 0.001 22.9 0.7 11 69-79 44-54 (115)
131 2dgt_A RNA-binding protein 30; 20.0 33 0.0011 21.4 0.9 19 61-79 35-53 (92)
No 1
>3aqq_A Calcium-regulated heat stable protein 1; compact beta-barrel, cold shock domain, ssDNA binding, DNA B protein; 2.80A {Homo sapiens}
Probab=100.00 E-value=2.4e-35 Score=223.67 Aligned_cols=110 Identities=57% Similarity=0.928 Sum_probs=92.1
Q ss_pred CCCCcCCCCcccccccccccccccccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEE
Q psy3654 29 SNNTLSLPSPIITRRTRTESISNRALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLC 108 (140)
Q Consensus 29 ~~s~~~iPsplp~~r~rt~s~~~~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~ 108 (140)
|.++++||++++++|+|+.++++++..+.|.+|+|||||.+||||||+++++++|||||+++|.+.+.+.+||+|+|+++
T Consensus 33 p~~g~liP~~~~trr~r~~s~~~~~~~g~m~~GtVKwFn~~KGfGFI~~ddGg~DVFVH~Sai~~~~~L~eGq~V~Fev~ 112 (147)
T 3aqq_A 33 PLRGNVVPSPLPTRRTRTFSATVRASQGPVYKGVCKCFCRSKGHGFITPADGGPDIFLHISDVEGEYVPVEGDEVTYKMC 112 (147)
T ss_dssp --------CCCCCTTSSCHHHHHHHHHSCCEEEEEEEEETTTTEEEEEESSSCSCEEEEGGGEESSBCCCTTCEEEEEEE
T ss_pred CccccccCCccccccccccccccccccCCccceEEEEEeCCCCeEEeccCCCCccEEEEeeeecCCCcCCCCCEEEEEEE
Confidence 45589999999999999999988999999999999999999999999999999999999999997766779999999999
Q ss_pred ecCCCCCCceEEEEEecCCCCc-cccccCCC
Q psy3654 109 PIPPKFEKNQAVHVEIVHLTPE-VHLQWDSP 138 (140)
Q Consensus 109 ~~~k~~~g~~A~~V~~~~~~p~-~~~~w~~~ 138 (140)
.++++.+|++|++|++++.+|+ +|++|+++
T Consensus 113 ~~~~~~~g~qA~nV~~~~~~p~~~h~~~~~~ 143 (147)
T 3aqq_A 113 SIPPKNEKLQAVEVVITHLAPGTKHETWSGH 143 (147)
T ss_dssp EC--CCSCEEEEEEEEEECCSSSCCCBCC--
T ss_pred eccCCCCCceEEEEEeCCCCCCccccccccc
Confidence 8654457899999999999995 99999986
No 2
>3cam_A Cold-shock domain family protein; cold shock protein, chain SWAP, STRU genomics, oxford protein production facility, OPPF, gene RE; 2.60A {Neisseria meningitidis MC58}
Probab=99.90 E-value=1.6e-23 Score=139.41 Aligned_cols=65 Identities=34% Similarity=0.568 Sum_probs=58.9
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEec
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIV 125 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~ 125 (140)
|.+|+|||||.+||||||+++++++|||||+|+|... + .+.+||+|+|++..+++ |++|++|+++
T Consensus 1 m~~G~Vk~fn~~kGfGFI~~~~gg~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~k---G~~A~~V~~~ 67 (67)
T 3cam_A 1 MATGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINMEGFKTLKEGQRVSFDVTTGPK---GKQAANIQAA 67 (67)
T ss_dssp CEEEEEEEEETTTTEEEEEETTSCCCEEEEGGGBCGGGGSSCCTTCEEEEEEEEETT---EEEEEEEEEC
T ss_pred CCCEEEEEEECCCCeEEEecCCCCccEEEEHHHccccCCCCCCCCCEEEEEEEECCC---CccceEEEeC
Confidence 4689999999999999999999889999999999976 4 56699999999999984 8899999864
No 3
>1x65_A UNR protein; cell-free protein synthesis, beta-barrel, translational REGU RNA chaperone, RNA/DNA binding, QB fold, greek-KEY topology protein; NMR {Homo sapiens}
Probab=99.89 E-value=1.9e-24 Score=151.53 Aligned_cols=81 Identities=23% Similarity=0.304 Sum_probs=71.1
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecCCCCccccccC
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTPEVHLQWD 136 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p~~~~~w~ 136 (140)
.+.+|+||||+ ||||||+++++++|||||+++|.....+.+||+|+|++..+++++++++|++|+++......+++|+
T Consensus 7 ~r~~G~Vk~f~--KGfGFI~~~~gg~DvFvH~s~i~~~~~L~~G~~V~F~v~~g~kg~G~~~A~~V~~~~~~sv~~e~~~ 84 (89)
T 1x65_A 7 GREMGVIAAMR--DGFGFIKCVDRDVRMFFHFSEILDGNQLHIADEVEFTVVPDMLSAQRNHAIRIKKLPKGTVSFHSHS 84 (89)
T ss_dssp CCEEEEEEECC--TTBCEEEESSSSSCCCCBTTGGGGSCCCCTTCCEEECCBCCSSSCCCCBCCSCEECCBTTBCCCCCC
T ss_pred cceeEEEEEEe--CCcceeecCCCCccEEEEhhhccCCCCCCCCCEEEEEEEeCCCcCCCceeeEEEECCCCceEeEecc
Confidence 47899999996 9999999999999999999999875456699999999999885345799999999987555899999
Q ss_pred CCC
Q psy3654 137 SPS 139 (140)
Q Consensus 137 ~~~ 139 (140)
+|+
T Consensus 85 e~~ 87 (89)
T 1x65_A 85 GPS 87 (89)
T ss_dssp CCC
T ss_pred ccC
Confidence 996
No 4
>3a0j_A Cold shock protein; OB-fold, cytoplasm, transcription, structural genomics, NPPSFA; 1.65A {Thermus thermophilus}
Probab=99.89 E-value=5.8e-23 Score=138.68 Aligned_cols=69 Identities=32% Similarity=0.495 Sum_probs=60.7
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEecCCC
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLT 128 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~ 128 (140)
|.+|+|||||.+||||||+++++ +|||||+++|... + .+.+||.|+|++..++++ +|++|++|+++..+
T Consensus 1 m~~G~Vk~fn~~kGfGFI~~~~g-~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~~~-kG~~A~~V~~~~~~ 71 (73)
T 3a0j_A 1 MQKGRVKWFNAEKGYGFIEREGD-TDVFVHYTAINAKGFRTLNEGDIVTFDVEPGRNG-KGPQAVNVTVVEPA 71 (73)
T ss_dssp CEEEEEEEEETTTTEEEEECTTS-CCEEEEGGGBCSSSCSSCCTTCEEEEEEECCSCC-SSSEEEEEEEEECC
T ss_pred CCCEEEEEEECCCCEEEEecCCC-CcEEEEhhhccccCCCCCCCCCEEEEEEEECCCC-CCCEEEEEEeCCCC
Confidence 56899999999999999999997 9999999999987 5 466999999999998732 37999999998654
No 5
>3i2z_B RNA chaperone, negative regulator of CSPA transcription; beta barrel, DNA binding protein/transcription, cytoplasm, gene regulation; 1.10A {Salmonella typhimurium} SCOP: b.40.4.5 PDB: 2l15_A 1mjc_A 3mef_A
Probab=99.89 E-value=7e-23 Score=137.64 Aligned_cols=65 Identities=34% Similarity=0.548 Sum_probs=59.5
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEec
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIV 125 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~ 125 (140)
+.+|+|||||.+||||||+++++++|||||+++|... + .+.+||.|+|++..+++ |++|.+|+++
T Consensus 5 ~~~G~Vk~fn~~kGfGFI~~~~g~~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~k---G~~A~~V~~~ 71 (71)
T 3i2z_B 5 KIKGNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAK---GPSAANVTAL 71 (71)
T ss_dssp CEEEEEEEEETTTTEEEEEETTCCCCEEEEGGGBCCSSCCCCCTTCEEEEEEEEETT---EEEEEEEEEC
T ss_pred cccEEEEEEECCCCcEEEecCCCCccEEEEhHHcccccCcCCCCCCEEEEEEEECCC---CCEeEEEEeC
Confidence 6789999999999999999999999999999999986 5 46699999999999984 8999999874
No 6
>1c9o_A CSPB, cold-shock protein; beta barrel, homodimer, transcription; 1.17A {Bacillus caldolyticus} SCOP: b.40.4.5 PDB: 2hax_A 1hz9_A 1hzb_A 1i5f_A 1hza_A 1hzc_A 3pf4_A 1csq_A 1nmf_A 1nmg_A 1csp_A 2f52_A 2es2_A 3pf5_A 2i5m_X 2i5l_X
Probab=99.88 E-value=6.1e-23 Score=135.96 Aligned_cols=64 Identities=34% Similarity=0.555 Sum_probs=58.2
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEec
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIV 125 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~ 125 (140)
|.+|+|||||.+||||||+++++ +|||||+++|... + .+.+||.|+|++..+++ |++|++|+++
T Consensus 1 m~~G~Vk~fn~~kGfGFI~~~~g-~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~k---G~~A~~V~~~ 66 (66)
T 1c9o_A 1 MQRGKVKWFNNEKGYGFIEVEGG-SDVFVHFTAIQGEGFKTLEEGQEVSFEIVQGNR---GPQAANVVKL 66 (66)
T ss_dssp CEEEEEEEEETTTTEEEEEETTE-EEEEEEGGGBCSSSCCCCCTTCEEEEEEEEETT---EEEEEEEEEC
T ss_pred CCceEEEEEECCCCeEEEecCCC-ccEEEEHHHccccCCCCCCCCCEEEEEEEECCC---CcEeEEEEeC
Confidence 56899999999999999999998 9999999999987 5 46699999999999984 7999999874
No 7
>2ytx_A Cold shock domain-containing protein E1; cell-free protein synthesis, beta-barrel, translational REGU RNA chaperone, RNA/DNA binding, QB fold; NMR {Homo sapiens}
Probab=99.88 E-value=1.6e-22 Score=143.42 Aligned_cols=79 Identities=22% Similarity=0.349 Sum_probs=71.0
Q ss_pred CceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC-cCCCCCEEEEEEEecCCCCCCceEEEEEecCCCCccccc
Q psy3654 56 NPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTPEVHLQ 134 (140)
Q Consensus 56 g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p~~~~~ 134 (140)
..+.+|+|||| .||||||+++++++|||||+++|...+ .+.+||.|+|++..+. ++++|++|+++......+++
T Consensus 16 ~~~~~G~Vkwf--~KGfGFI~~ddg~~DvFvH~s~i~~~~~~L~~G~~V~F~v~~~~---~g~~A~~V~~~~~~~~~~e~ 90 (97)
T 2ytx_A 16 QARCQGVVCAM--KEAFGFIERGDVVKEIFFHYSEFKGDLETLQPGDDVEFTIKDRN---GKEVATDVRLLPQGTVIFED 90 (97)
T ss_dssp CCCEEEEECCC--CSSEEEEECSSSCCCEEEETTTCCSCTTSCCSCCEEEEEECCCS---SSCBEEEEEECCCSSCCCCS
T ss_pred CcceeEEEEEE--eCCceEEecCCCCceEEEEehHhccccCCCCCCCEEEEEEEcCC---CCcEEEEEEECCCCccceee
Confidence 45789999999 899999999999899999999999874 4669999999997654 68999999999988889999
Q ss_pred cCCCC
Q psy3654 135 WDSPS 139 (140)
Q Consensus 135 w~~~~ 139 (140)
|++|.
T Consensus 91 ~~~~~ 95 (97)
T 2ytx_A 91 ISGPS 95 (97)
T ss_dssp CCSCC
T ss_pred ccCCC
Confidence 99985
No 8
>2k5n_A Putative cold-shock protein; GFT protein structure, PSI, nesgc, OB fold, cold shock structural genomics; NMR {Pectobacterium atrosepticum}
Probab=99.87 E-value=2.9e-22 Score=136.00 Aligned_cols=70 Identities=20% Similarity=0.333 Sum_probs=61.9
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecCCCCc
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTPE 130 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p~ 130 (140)
++.+|+|||||.+||||||+++++++| |||+|+|.....+.+||+|+|++..+++ |++|++|+++...-.
T Consensus 1 M~~~G~Vkwfn~~KGfGFI~~~dg~~d-FvH~s~i~~~g~l~~G~~V~F~~~~g~k---G~~A~~V~~~~~~~~ 70 (74)
T 2k5n_A 1 MAMNGTITTWFKDKGFGFIKDENGDNR-YFHVIKVANPDLIKKDAAVTFEPTTNNK---GLSAYAVKVVPLEHH 70 (74)
T ss_dssp CCEEEEEEEEETTTTEEEEEESSSCEE-EEEGGGBSSGGGCCTTCEEEEEEEECSS---SEEEEEEEECCSSCC
T ss_pred CCcceEEEEEECCCCeEEEecCCCCce-EEEHhHcccCCCCCCCCEEEEEEEeCCC---CceeEEEEeCCCccc
Confidence 367899999999999999999998777 9999999876556799999999999884 799999998877543
No 9
>3ulj_A LIN28B, DNA-binding protein; beta barrel, cold shock domain fold, nucleic acid binding, D binding protein; 1.06A {Silurana} PDB: 4a4i_A
Probab=99.87 E-value=2e-22 Score=141.57 Aligned_cols=72 Identities=24% Similarity=0.245 Sum_probs=62.0
Q ss_pred CceeeeEEEEeeCCCceeEEe-------cCCCCCeEEEEEccccCC-Cc-CCCCCEEEEEEEecCCCCCCceEEEEEecC
Q psy3654 56 NPVETGKIKEFCRSKGHGFIT-------PDSGEPAVFVHISDIEGC-YV-PLPGDEVKYRLCPIPPKFEKNQAVHVEIVH 126 (140)
Q Consensus 56 g~~~~G~VK~f~~~KGfGFI~-------~~~g~~dIFfH~s~l~~~-~~-~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~ 126 (140)
..+.+|+|||||..||||||+ ++++++|||||+|+|..+ ++ +.+||.|+|++..+++ |++|++|+.+.
T Consensus 6 ~~r~tG~VKWFn~~KGfGFI~~~~~~~~p~dgg~DvFVH~s~i~~~g~~~L~eG~~V~f~v~~g~k---G~~A~~Vtg~~ 82 (90)
T 3ulj_A 6 VLRGSGHCKWFNVRMGFGFISMTSREGSPLENPVDVFVHQSKLYMEGFRSLKEGEPVEFTFKKSSK---GFESLRVTGPG 82 (90)
T ss_dssp CEEEEEEEEEEETTTTEEEEEEEEETTEEEEEEEEEEEEGGGBCCSSSCCCCTTCEEEEEEEEETT---EEEEEEEECGG
T ss_pred ccccceEEEEeeCCCCeEEeEecCcCcCCCCCCccEEEEeehhcccCCCccCCCCEEEEEEEECCC---CcEEEEEECCC
Confidence 346789999999999999997 456778999999999887 65 4599999999999984 89999999887
Q ss_pred CCCc
Q psy3654 127 LTPE 130 (140)
Q Consensus 127 ~~p~ 130 (140)
-.|.
T Consensus 83 G~p~ 86 (90)
T 3ulj_A 83 GNPC 86 (90)
T ss_dssp GCCC
T ss_pred Cccc
Confidence 6654
No 10
>2kcm_A Cold shock domain family protein; nucleic acid binding protein, beta barrel, structural genomi 2, protein structure initiative; NMR {Shewanella oneidensis}
Probab=99.86 E-value=3.8e-22 Score=135.43 Aligned_cols=66 Identities=24% Similarity=0.365 Sum_probs=59.1
Q ss_pred eeeEEEEeeCCCceeEEecCCCCCeEEEEEcccc-CC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEecCCC
Q psy3654 59 ETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIE-GC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLT 128 (140)
Q Consensus 59 ~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~-~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~ 128 (140)
++|+|||||.+||||||+++++ +|||||+++|. .. + .+.+||+|+|++..+++ |++|++|+++.+-
T Consensus 1 ~~G~Vkwfn~~KGfGFI~~~dG-~DvFvH~s~i~~~~g~~~l~~G~~V~F~~~~g~k---G~~A~~V~~~~~~ 69 (74)
T 2kcm_A 1 MKGKVVSYLAAKKYGFIQGDDG-ESYFLHFSELLDKKDEGKLVKGSMVHFDPTPTPK---GLAAKAISLPLEH 69 (74)
T ss_dssp CEEEEEEEETTTTEEEEEETTS-CEECCCGGGSSCSGGGTTCCTTSEEEEEEECTTT---SCEEEEEECCSCS
T ss_pred CCEEEEEEECCCCEEEEecCCC-ceEEEEhhhcccCCCCCCCCCCCEEEEEEEECCC---CceeEEEEEcCcc
Confidence 4799999999999999999998 99999999999 66 4 46699999999999874 7999999988764
No 11
>1g6p_A Cold shock protein TMCSP; greek-KEY, beta barrel, OB-fold, structural genomics; NMR {Thermotoga maritima} SCOP: b.40.4.5
Probab=99.86 E-value=3e-22 Score=132.75 Aligned_cols=64 Identities=41% Similarity=0.531 Sum_probs=57.3
Q ss_pred eeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEecC
Q psy3654 59 ETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVH 126 (140)
Q Consensus 59 ~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~ 126 (140)
++|+|||||.+||||||+++++ +|||||+++|... + .+.+||+|+|++..+++ |++|++|+++.
T Consensus 1 m~G~Vk~fn~~kGfGFI~~~~g-~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~~---G~~A~~V~~~~ 66 (66)
T 1g6p_A 1 MRGKVKWFDSKKGYGFITKDEG-GDVFVHWSAIEMEGFKTLKEGQVVEFEIQEGKK---GPQAAHVKVVE 66 (66)
T ss_dssp CCEEEEEEETTTTEEEEEETTS-CBCBBCSSSSCCSSCCCCCSSSEEEEEEECSSS---CCEEEEEEEEC
T ss_pred CcEEEEEEECCCCEEEEecCCC-ceEEEEhHHccccCCCCCCCCCEEEEEEEECCC---CCEEEEEEECC
Confidence 4799999999999999999976 8999999999987 4 46699999999999884 79999999763
No 12
>1h95_A CSD, Y-box binding protein; translation factor, transcription factor, OB-fold, 5- stranded anti-parallel beta-barrel, single stranded DNA binding; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=99.86 E-value=3.3e-22 Score=136.90 Aligned_cols=66 Identities=24% Similarity=0.305 Sum_probs=58.5
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-----C-cCCCCCEEEEEEEecCCCCCCceEEEEEec
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-----Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIV 125 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-----~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~ 125 (140)
.+.+|+|||||.+||||||+++++++|||||+|+|... + .+.+||.|+|++..+++ |++|++|+..
T Consensus 7 ~~~~G~Vkwfn~~kGfGFI~~~~gg~DvFvH~s~i~~~~~~~g~~~l~~G~~V~f~~~~~~k---G~~A~~V~~p 78 (79)
T 1h95_A 7 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEK---GAEAANVTGP 78 (79)
T ss_dssp EEEEEEEEEEETTTTEEEEEEGGGTEEEEEEGGGBCSCCCSCCSCSCCSSCEEEEEEEECSS---SEEEESBCCC
T ss_pred cccceEEEEEECCCCcEEEecCCCCccEEEEhHHccccccccccccCCCCCEEEEEEEECCC---CceeEEEECc
Confidence 46789999999999999999999889999999999864 3 35599999999999884 8899999764
No 13
>1wfq_A UNR protein; beta-barrel, translational regulation, RNA chaperone, RNA/DN binding, QB fold, greek-KEY topology, structur genomics; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=99.86 E-value=1.8e-21 Score=136.15 Aligned_cols=70 Identities=24% Similarity=0.295 Sum_probs=60.5
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC-cCCCCCEEEEEEEecCCCCCCceEEEEEecCCCC
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTP 129 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p 129 (140)
.+.+|+||||| ||||||+++++++|||||+++|...+ .+.+||+|+|++..+++ .++++|++|+++...+
T Consensus 17 ~~~~G~Vkwf~--KGfGFI~~ddgg~DVFvH~s~i~~~~~~L~~G~~V~F~v~~~~k-~Gk~~A~~V~~~~~~~ 87 (89)
T 1wfq_A 17 LRETGVIEKLL--TSYGFIQCSERQARLFFHCSQYNGNLQDLKVGDDVEFEVSSDRR-TGKPIAVKLVKISGPS 87 (89)
T ss_dssp CEEEEEEEEEC--SSEEEEEETTTTEEEEEETTTCSSCTTTCCTTCCEEEEEEECSS-SCCEEEEEEEESSCCC
T ss_pred cccceEEEEEe--CCeeEEecCCCCccEEEEhHHhhCccCCCCCCCEEEEEEEECCC-CCCcEEEEEEECCcCC
Confidence 57899999996 99999999999899999999999874 56699999999999874 1239999999986643
No 14
>2lss_A Cold shock-like protein; CSD, CSP, oligonucleotide binding F fold, RNA binding protein, DNA binding protein; NMR {Rickettsia rickettsii}
Probab=99.76 E-value=4.1e-23 Score=138.40 Aligned_cols=64 Identities=33% Similarity=0.468 Sum_probs=58.3
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-Cc-CCCCCEEEEEEEecCCCCCCceEEEEEe
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-YV-PLPGDEVKYRLCPIPPKFEKNQAVHVEI 124 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~~-~l~Gd~V~F~v~~~~k~~~g~~A~~V~~ 124 (140)
+++|+|||||.+||||||+++++++|||||+++|... ++ +.+||.|+|++..++ +|++|++|++
T Consensus 4 ~~~G~Vk~fn~~kGfGFI~~~~gg~dvFvH~s~i~~~g~~~l~~G~~V~f~~~~~~---~g~~A~~V~~ 69 (70)
T 2lss_A 4 NIVGKVKWYNSTKNFGFIEQDNGGKDVFVHKSAVDAAGLHSLEEGQDVIFDLEEKQ---GKAYAVNLRI 69 (70)
Confidence 4789999999999999999999989999999999987 54 569999999999987 4899999975
No 15
>2yty_A Cold shock domain-containing protein E1; cell-free protein synthesis, beta-barrel, translational REGU RNA chaperone, RNA/DNA binding, QB fold; NMR {Homo sapiens}
Probab=99.84 E-value=2.8e-21 Score=134.90 Aligned_cols=72 Identities=22% Similarity=0.248 Sum_probs=61.9
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC-cCCCCCEEEEEEEecCCCCCCceEEEEEecCCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLT 128 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~ 128 (140)
...+.+.+|+||||+ ||||||+++++++|||||+++|..++ .+.+||.|+|++..+++ ++++|++|+++...
T Consensus 13 ~~~~~~~~G~Vk~f~--kGfGFI~~ddgg~DvFvH~S~i~~~~~~L~~G~~V~F~~~~g~~--Gk~~A~~V~~~~~~ 85 (88)
T 2yty_A 13 NSNSKRLLGYVATLK--DNFGFIETANHDKEIFFHYSEFSGDVDSLELGDMVEYSLSKGKG--NKVSAEKVNKTSGP 85 (88)
T ss_dssp CSSCCCEEEEEEEEC--SSEEEEECSSSSCEEEEETTTCCSCTTTCCTTCEEEECCCCCSC--SCCBCCSCEECCCC
T ss_pred cCCCCceeEEEEEEE--CCccEEecCCCCceEEEEEhhhccccCcCCCCCEEEEEEEECCC--CCeEeEEEEECCCC
Confidence 334677899999997 89999999999999999999999884 46699999999999874 34899999988653
No 16
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=99.80 E-value=4.6e-20 Score=139.22 Aligned_cols=72 Identities=21% Similarity=0.182 Sum_probs=62.7
Q ss_pred CCceeeeEEEEeeCCCceeEEecC-------CCCCeEEEEEccccCC-C-cCCCCCEEEEEEEecCCCCCCceEEEEEec
Q psy3654 55 QNPVETGKIKEFCRSKGHGFITPD-------SGEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIPPKFEKNQAVHVEIV 125 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfGFI~~~-------~g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~ 125 (140)
.....+|+|||||.+||||||+.+ ++++|||||+++|... + .+.+||.|+|++..+++ |++|++|+..
T Consensus 6 ~l~~~~G~Vkwfn~~kGfGFI~~~~~~g~p~~~g~DvFvH~s~i~~~g~~~l~eG~~V~f~~~~g~k---G~~A~~V~~p 82 (148)
T 3ts2_A 6 QLLHGAGICKWFNVRMGFGFLSMTARAGVALDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAK---GLESIRVTGP 82 (148)
T ss_dssp CCEEEEEEEEEEETTTTEEEEEEEEETTEEEEEEEEEEEEGGGBCSSSSCCCCTTCEEEEEEEEETT---EEEEEEEESG
T ss_pred ccccceeEEEEEECCCCeeEEeeCccccccCCCCccEEEEhHHhcccCCccCCCCCEEEEEEEEccc---cchhhccccc
Confidence 345788999999999999999987 4678999999999876 5 45699999999999984 8999999998
Q ss_pred CCCC
Q psy3654 126 HLTP 129 (140)
Q Consensus 126 ~~~p 129 (140)
...+
T Consensus 83 gg~p 86 (148)
T 3ts2_A 83 GGVF 86 (148)
T ss_dssp GGCC
T ss_pred CCcc
Confidence 7655
No 17
>2ytv_A Cold shock domain-containing protein E1; cell-free protein synthesis, beta-barrel, translational REGU RNA chaperone, RNA/DNA binding, QB fold; NMR {Homo sapiens}
Probab=99.76 E-value=5.1e-19 Score=121.23 Aligned_cols=67 Identities=19% Similarity=0.325 Sum_probs=57.9
Q ss_pred CceeeeEEEEeeCCCceeEEecCCC-CCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCc-eEEEEEecC
Q psy3654 56 NPVETGKIKEFCRSKGHGFITPDSG-EPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKN-QAVHVEIVH 126 (140)
Q Consensus 56 g~~~~G~VK~f~~~KGfGFI~~~~g-~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~-~A~~V~~~~ 126 (140)
.+..+|+|+|| .||||||+++++ ++|||||+++|.....+.+||+|+|++..+++ +|+ +|++|+++.
T Consensus 6 ~~~~~G~V~~~--~KGfGFI~~ddg~g~DvFvH~s~i~~g~~l~~G~~V~F~v~~~~k--~G~~~A~~V~~~~ 74 (79)
T 2ytv_A 6 SGLRRATVECV--KDQFGFINYEVGDSKKLFFHVKEVQDGIELQAGDEVEFSVILNQR--TGKCSACNVWRVS 74 (79)
T ss_dssp CSBCCEEEEEC--CSSEEEESCCCSSSSSEEEETTTCCSSCCCCTTCEEECBCEECSS--SCCEECCSCEECS
T ss_pred CCcccEEEEEe--cccceeEeCCCCCCCcEEEEhHHcCCCCcCCCCCEEEEEEEECCC--CCCceeEEEEECC
Confidence 35688999999 599999999988 69999999999944456699999999999874 477 999999985
No 18
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli}
Probab=99.61 E-value=1.1e-15 Score=108.36 Aligned_cols=58 Identities=41% Similarity=0.563 Sum_probs=50.1
Q ss_pred CCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C---cCCCCCEEEEEEEecCC
Q psy3654 55 QNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y---VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~---~~l~Gd~V~F~v~~~~k 112 (140)
.+.+.+|+|||||.+||||||++++++.|||||+++|... + .+.+|+.|+|++....+
T Consensus 13 ~~~~~~G~Vk~fn~~kGfGFI~~~~gg~dvfvH~s~l~~~~~~~~~l~~Ge~V~g~V~~i~~ 74 (101)
T 2bh8_A 13 QSGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFSAGSSGAAVRGNPQQGDRVEGKIKSITD 74 (101)
T ss_dssp ---CEEEEEEEEEGGGTEEEEEESSSSCEEEEECCCSCSSSCCCCCCCTTCEEEEEEEECCS
T ss_pred ccccceeEEEEEECCCCCEEEEeCCCCcEEEEEEEEEecCCccccCCCCCCEEEEEEEEeCC
Confidence 3467899999999999999999999999999999999976 4 45699999999998763
No 19
>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=97.08 E-value=0.0015 Score=47.82 Aligned_cols=69 Identities=25% Similarity=0.384 Sum_probs=49.9
Q ss_pred eeeeEEEEeeCCCceeEEecCC-----CCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceE-EEEEecC-CCCc
Q psy3654 58 VETGKIKEFCRSKGHGFITPDS-----GEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQA-VHVEIVH-LTPE 130 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~-----g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A-~~V~~~~-~~p~ 130 (140)
...|++.-- .+||||+.+++ +.+||||..+.|... .++.||.|+-.+.... ..+++-| ..|.-++ ..|+
T Consensus 50 ~~~Gvlei~--~dG~GFlr~~~~~y~~~~~DiyVs~~~irrf-~lr~GD~V~g~vr~~~-~~ek~~~l~~v~~vng~~pe 125 (130)
T 1a62_A 50 FGDGVLEIL--QDGFGFLRSADSSYLAGPDDIYVSPSQIRRF-NLRTGDTISGKIRPPK-EGERYFALLKVNEVNFDKPE 125 (130)
T ss_dssp EEEEEEEEC--TTSCEEEECGGGTTCCCTTCEEECHHHHHHT-TCCTTCEEEEEEECCC-TTCCSEEEEEEEEETTBCCC
T ss_pred EEEEEEEEc--CCCeEEEecCCcCCCCCCCCEEECHHHHhHh-CCCCCCEEEEEEeCCC-CCCcccceeEEEeECCCCHH
Confidence 467888765 56999999983 678999999998753 4779999999987643 3345544 5676555 4454
No 20
>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=96.13 E-value=0.01 Score=53.09 Aligned_cols=64 Identities=23% Similarity=0.384 Sum_probs=49.9
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecCCCC
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTP 129 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p 129 (140)
..+.|+|+. ..|||||+.+++ ++|||+.-.++.. ...||+|..++.... ++..|.-|.++..+.
T Consensus 20 ~~~~G~~~~--~~~GfgF~~~d~-~~difi~~~~~~~---a~~GD~V~v~i~~~~---~~~eg~v~~iler~~ 83 (644)
T 2id0_A 20 PRAEGVVKA--TEKGFGFLEVDA-QKSYFIPPPQMKK---VMHGDRIIAVIHSEK---ERESAEPEELVEPFL 83 (644)
T ss_dssp CEEEEEEEC--CSSSCEEEECSS-SCEEEECHHHHTT---SCTTCEEEEEEECCS---SSCEEEEEEEEECSC
T ss_pred CeEEEEEEE--ecCCcEEEEECC-CCCEEECHHHHhc---CCCCCEEEEEEecCC---CCeEEEEEEEEecCC
Confidence 468899997 478999999986 5899998777665 458999999987642 467888777776543
No 21
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=95.66 E-value=0.049 Score=35.66 Aligned_cols=69 Identities=14% Similarity=0.234 Sum_probs=47.4
Q ss_pred CCceeeeEEEEeeCCCcee-EEecCCCCCeEEEEEccccCCC--cCCCCCEEEEEEEecCCCCCCceEEEEEecCCCCc
Q psy3654 55 QNPVETGKIKEFCRSKGHG-FITPDSGEPAVFVHISDIEGCY--VPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTPE 130 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfG-FI~~~~g~~dIFfH~s~l~~~~--~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p~ 130 (140)
.|..+.|+|+...+ || |+..++ +-+-|+|++++...+ .+..||.|..++...+. ...-+.+.+..+.+.
T Consensus 5 ~G~iv~G~V~~v~~---~G~fV~l~~-~~~Gllh~sel~~~~~~~~~~Gd~V~v~V~~vd~---~~~~i~lsl~~~~~~ 76 (80)
T 2k52_A 5 PGKFYKGVVTRIEK---YGAFINLNE-QVRGLLRPRDMISLRLENLNVGDEIIVQAIDVRP---EKREIDFKYIPLEHH 76 (80)
T ss_dssp TTCEEEEEEEEEET---TEEEEEEET-TEEEEECGGGCSSCCGGGCCTTCEEEEEEEEEET---TTTEEEEEECSCC--
T ss_pred CCCEEEEEEEEEeC---CEEEEEECC-CCEEEEEHHHCCcccceeeCCCCEEEEEEEEEEC---CCCEEEEEEeecccc
Confidence 57889999999854 77 555554 578999999997653 46699999999987653 112344444444443
No 22
>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=95.45 E-value=0.07 Score=37.84 Aligned_cols=56 Identities=20% Similarity=0.250 Sum_probs=42.6
Q ss_pred ccCCceeeeEEEEeeCCCcee-EEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHG-FITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfG-FI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~ 111 (140)
...|..+.|+|+.... || ||..++.+.+-|+|++++...+ .+..||.|..++...+
T Consensus 20 ~~vG~iv~G~V~~I~~---fGaFV~l~g~~~~Glvhisel~~~~~~~~~~~~~~Gd~V~VkV~~vd 82 (119)
T 2cqo_A 20 PALYTIFQGEVAMVTD---YGAFIKIPGCRKQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGRE 82 (119)
T ss_dssp CCTTCEEEEEEEEEET---TEEEEECTTCSSCEEEEHHHHCSSCCSCHHHHCCTTCEEEEEEEEEE
T ss_pred cCCCCEEEEEEEEEeC---ceEEEEECCCcEEEEEEHHHCCcccccChhhcCCCCCEEEEEEEEEe
Confidence 4468899999999864 77 5665332468999999997642 2459999999998765
No 23
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=94.31 E-value=0.38 Score=33.46 Aligned_cols=58 Identities=21% Similarity=0.216 Sum_probs=43.2
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-------CcCCCCCEEEEEEEecCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-------YVPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-------~~~l~Gd~V~F~v~~~~k 112 (140)
....|..+.|+|+...+ ||+....+.+-+-|+|++++..+ ..+..||.|..++...+.
T Consensus 27 ~~~~G~~~~G~V~~v~~---~G~FV~l~~~~~Glvhisel~~~~~~~~~~~~~~vGd~V~vkV~~vd~ 91 (115)
T 2khi_A 27 RYPEGTKLTGRVTNLTD---YGCFVEIEEGVEGLVHVSEMDWTNKNIHPSKVVNVGDVVEVMVLDIDE 91 (115)
T ss_dssp SSCSSCEEEEEEEEEET---TEEEEECSTTCEEEEETTSSSCSSTTCSSTTTCCTTCEEEEEEEEEET
T ss_pred cCCCCCEEEEEEEEEEC---CEEEEEECCCCEEEEEHHHCCccccccCcccEECCCCEEEEEEEEEEC
Confidence 34468899999999864 77554445458999999999642 134599999999987653
No 24
>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=94.09 E-value=0.14 Score=40.03 Aligned_cols=56 Identities=14% Similarity=0.145 Sum_probs=43.5
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC---------------c-CCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY---------------V-PLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~---------------~-~l~Gd~V~F~v~~~~ 111 (140)
+...|+.+.|+|+.-.. ||+....+. .|.|+|++.|...+ + ...||.|.+++...+
T Consensus 80 ~p~vGev~~G~V~~vt~---fG~FVelg~-~dGlVhiS~l~d~~~~d~~~~~w~~~~~~~~~~~Gd~VrVkV~~vd 151 (215)
T 2b8k_G 80 KPFKGEVVDGTVVSCSQ---HGFEVQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGCI 151 (215)
T ss_dssp CCCTTEEEEEEEEEEET---TEEEEECTT-SEEEEEGGGSCSSCCCBSSCSSCEEECSSCEEETTCEEEEEEEEEE
T ss_pred ccCCCCEEEEEEEEEec---ceEEEEecC-cEEEEEHHHCCccceeccccccceeeccccEECCCCEEEEEEEEEE
Confidence 45579999999999874 887776665 89999999996431 1 228999999998755
No 25
>3go5_A Multidomain protein with S1 RNA-binding domains; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.40A {Streptococcus pneumoniae}
Probab=93.60 E-value=0.35 Score=39.25 Aligned_cols=65 Identities=18% Similarity=0.210 Sum_probs=45.8
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCC-CCeEEEEEccccCC--CcCCCCCEEEEEEEecCCCCCCceEE
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSG-EPAVFVHISDIEGC--YVPLPGDEVKYRLCPIPPKFEKNQAV 120 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g-~~dIFfH~s~l~~~--~~~l~Gd~V~F~v~~~~k~~~g~~A~ 120 (140)
+...|....|+|++.. +.||.....+. +.|+|+|++++... ..+..||.|...+.-+. .+++.|.
T Consensus 66 ~~~~G~~~~g~V~~v~--~~~GaFVdiG~~~~d~lvp~sel~~~~~~~~~~Gd~v~v~l~iD~--~~Ri~ls 133 (285)
T 3go5_A 66 TATQDQFGWGRVTEVR--KDLGVFVDTGLPDKEIVVSLDILPELKELWPKKGDQLYIRLEVDK--KDRIWGL 133 (285)
T ss_dssp CSCSSSCEEEEEEEEE--TTTEEEEECSCTTCCEEEEGGGSCSSGGGSCCTTCEEEEEEEECT--TSCEEEE
T ss_pred cccCCCEEEEEEEEEc--cCceEEEEECCCCcEEEEEHHHCCcccccccCCCCEEEEEEEECC--CCcEEEE
Confidence 4667999999999985 24775444444 57999999998664 34569999987775544 2444443
No 26
>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=93.27 E-value=1.4 Score=30.58 Aligned_cols=57 Identities=11% Similarity=0.018 Sum_probs=38.6
Q ss_pred cccCCceeeeEEEEeeCCCcee-EEecCCCCCeEEEEEccccC------C--CcCCCCCEEEEEEEecCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHG-FITPDSGEPAVFVHISDIEG------C--YVPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfG-FI~~~~g~~dIFfH~s~l~~------~--~~~l~Gd~V~F~v~~~~k 112 (140)
....|..+.|+|+... .|| ||....++...| |.+.... + ..+..||.|..++...++
T Consensus 18 ~l~~G~i~~G~V~~v~---~fG~fV~l~~~~~~~l-~~~~~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd~ 83 (119)
T 1wi5_A 18 ALKPGMLLTGTVSSLE---DHGYLVDIGVDGTRAF-LPLLKAQEYIRQKNKGAKLKVGQYLNCIVEKVKG 83 (119)
T ss_dssp TCCTTCEEEEEEEEEC---SSEEEEECCCSSCEEE-EEHHHHHHHHHHHSSSCCCCTTCEEEEEEEECCT
T ss_pred cCCCCCEEEEEEEEEe---CceEEEEECCCCeEEE-EEEecccccccccCccCEeCCCCEEEEEEEEEeC
Confidence 3457899999999984 588 555552445554 5544421 1 235599999999988764
No 27
>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=93.21 E-value=0.35 Score=33.07 Aligned_cols=57 Identities=21% Similarity=0.301 Sum_probs=43.2
Q ss_pred ccCCceeeeEEEEeeCCCcee-EEecCC--CCCeEEEEEccccCC-C------cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHG-FITPDS--GEPAVFVHISDIEGC-Y------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfG-FI~~~~--g~~dIFfH~s~l~~~-~------~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+..- -|| ||...+ .+.+-|+|++++..+ + .+..||.|..++...+.
T Consensus 10 ~~vG~i~~G~V~~v~---~fG~FV~l~~~~~~~~Glvhisel~~~~~~~~~~~~~~~Gd~V~VkV~~vd~ 76 (103)
T 2eqs_A 10 PTIGDIYNGKVTSIM---QFGCFVQLEGLRKRWEGLVHISELRREGRVANVADVVSKGQRVKVKVLSFTG 76 (103)
T ss_dssp CCTTCEEEEEEEEEC---SSCEEEEECSSSSCCEEEECGGGTSSSSCCCCHHHHCCTTCEEEEEEEEEET
T ss_pred CCCCCEEEEEEEEEe---ccEEEEEEcCCCCCeEEEEEHHHCCCCcccCCcccEeCCCCEEEEEEEEEEC
Confidence 446899999999984 377 666665 267899999999432 1 24599999999988763
No 28
>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=93.18 E-value=0.19 Score=37.36 Aligned_cols=56 Identities=14% Similarity=0.145 Sum_probs=42.7
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC---------------c-CCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY---------------V-PLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~---------------~-~l~Gd~V~F~v~~~~ 111 (140)
+...|+.+.|+|+.-.. ||+...... .|.|+|+|.+...+ + ...||.|++++...+
T Consensus 80 ~~~~Gev~~G~V~~v~~---fG~FV~l~~-~dglvhis~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd 151 (171)
T 1y14_B 80 KPFKGEVVDGTVVSCSQ---HGFEVQVGP-MKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGCI 151 (171)
T ss_dssp CCCTTCEEEEEEEEEET---TEEEEEETT-EEEEEEGGGSCTTCEECC-----CEECSSCEECTTCEEEEEEEEEE
T ss_pred cCCCCCEEEEEEEEEec---CEEEEEecC-eEEEEEHHHCCCCceECcccCceEEeccceEECCCCEEEEEEEEEE
Confidence 45579999999999874 887666555 89999999986431 1 237999999987754
No 29
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis}
Probab=93.10 E-value=0.2 Score=35.85 Aligned_cols=56 Identities=25% Similarity=0.294 Sum_probs=42.5
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~ 111 (140)
...|..+.|+|+...+ ||+....+++.+-|+|++++...+ .+..||.|..++...+
T Consensus 5 ~~vG~iv~G~V~~i~~---~G~FV~l~~~~~Glihisel~~~~~~~~~~~~~vGd~V~vkV~~vd 66 (130)
T 2k4k_A 5 FEVGSVYTGKVTGLQA---YGAFVALDEETQGLVHISEVTHGFVKDINEHLSVGDEVQVKVLAVD 66 (130)
T ss_dssp CCTTCEEEEEEEEEET---TEEEEEEETTEEEEEEGGGTSSSCCSCGGGTCCTTCEEEEEEEEEE
T ss_pred CCCCCEEEEEEEEEeC---CeEEEEECCCcEEEEEHHHCCcccccCccccCCCCCEEEEEEEEEe
Confidence 3468899999999853 676555544579999999997542 2449999999998765
No 30
>1luz_A Protein K3, protein K2; stranded anti-parallel beta barrel, viral protein; 1.80A {Vaccinia virus} SCOP: b.40.4.5
Probab=92.06 E-value=0.38 Score=32.25 Aligned_cols=55 Identities=15% Similarity=0.063 Sum_probs=42.4
Q ss_pred ccCCceeeeEEEEeeCCCcee-EEecCC-CCCeEEEEEc-cccCC-C-----cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHG-FITPDS-GEPAVFVHIS-DIEGC-Y-----VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfG-FI~~~~-g~~dIFfH~s-~l~~~-~-----~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+ .. .|| |+..++ ++.+=++|+| ++..+ + .. .||.|..++...++
T Consensus 9 ~~vG~~~~G~V~-v~---~fG~FVel~~~~~~eGLvhis~el~~~~~~~~~~~~-~Gd~V~VkV~~vd~ 72 (88)
T 1luz_A 9 PNAGDVIKGRVY-EK---DYALYIYLFDYPHFEAILAESVKMHMDRYVEYRDKL-VGKTVKVKVIRVDY 72 (88)
T ss_dssp CCTTCEEEEEEE-EE---TTEEEEEETTCTTSEEEEGGGSSCCHHHHHHHHHHH-TTCEEEEEEEEEET
T ss_pred CCCCCEEEEEEE-EE---ccEEEEEECCCCCeEEEEEeeHHhCcccccCHhHEe-CCCEEEEEEEEEEC
Confidence 346889999999 65 477 777765 4689999999 98653 1 23 99999999988764
No 31
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=92.01 E-value=0.21 Score=34.40 Aligned_cols=57 Identities=18% Similarity=0.186 Sum_probs=42.4
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+...+ ||+....+.+-+-|+|++++...+ .+..||.|..++...++
T Consensus 29 ~~~G~iv~G~V~~v~~---~G~fV~l~~~~~Gll~~sel~~~~~~~~~~~~~vGd~V~v~V~~vd~ 91 (109)
T 2khj_A 29 NKKGAIVTGKVTAVDA---KGATVELADGVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDR 91 (109)
T ss_dssp CCSSSEEEEEEEEECS---SCEEEECSTTCBCCBCTTCCCSSSSSSGGGSCCTTCEEEEEEEEEET
T ss_pred CCCCCEEEEEEEEEEC---CeEEEEECCCCEEEEEHHHcCcccccChhhccCCCCEEEEEEEEEEC
Confidence 3468899999999853 565444444578999999996541 24599999999988664
No 32
>3aev_A Translation initiation factor 2 subunit alpha; proteins-rRNA complex, 16S rRNA, RNA-binding; 2.80A {Pyrococcus horikoshii} PDB: 1yz6_A
Probab=91.88 E-value=0.49 Score=38.21 Aligned_cols=55 Identities=20% Similarity=0.402 Sum_probs=42.9
Q ss_pred CCceeeeEEEEeeCCCcee-EEecCC-CCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 55 QNPVETGKIKEFCRSKGHG-FITPDS-GEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfG-FI~~~~-g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
.|..+.|+|+...+ || |+..++ ++-+-|+|+|++...+ .+..||.|..++...++
T Consensus 11 ~Gdiv~G~V~~I~~---fGaFV~L~e~~gieGlIhiSels~~~v~~~~~~~kvGd~V~vkVi~vD~ 73 (275)
T 3aev_A 11 EGEFVVATVKRIHN---YGAFLELDEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRVDP 73 (275)
T ss_dssp TTCEEEEEEEEEET---TEEEEEETTSTTCEEEEEGGGSCSSCCSCGGGTCCTTCEEEEEEEEEET
T ss_pred CCCEEEEEEEEEEC---cEEEEEECCCCCeEEEEEHHHcCcccccCHHhccCCCCEEEEEEEEEEC
Confidence 68899999999854 67 666654 4689999999997541 24499999999988663
No 33
>3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=91.71 E-value=0.24 Score=37.02 Aligned_cols=66 Identities=15% Similarity=0.174 Sum_probs=46.8
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC--Cc--------------CCCCCEEEEEEEecCCCCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC--YV--------------PLPGDEVKYRLCPIPPKFE 115 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~--~~--------------~l~Gd~V~F~v~~~~k~~~ 115 (140)
+...|+.+.|+|+.-.. ||+-...+.. +.|+|++++... +. ...||.|++++...+...+
T Consensus 81 ~p~~Gev~~G~V~~v~~---fG~FV~l~~~-~glVh~s~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvkV~~vd~~~~ 156 (172)
T 3h0g_G 81 RPFRGEVVDAIVTTVNK---MGFFANIGPL-NVFVSSHLVPPDMKFDPTANPPNYSGEDQVIEKGSNVRLKIVGTRTDAT 156 (172)
T ss_dssp CCCTTCEEECCCCEEET---TEEECCBTTB-CCEEEGGGSCTTCCCBSSSSSCBEESSSCEECSSCCEEEEEEEEEESSS
T ss_pred ccCCCCEEEEEEEEEEc---ceEEEEeCCe-EEEEEHHHCCCccccCcccccceEecCCcEECCCCEEEEEEEEEECCCC
Confidence 45578899999999874 8876666554 599999999643 21 2499999999987654333
Q ss_pred CceEEE
Q psy3654 116 KNQAVH 121 (140)
Q Consensus 116 g~~A~~ 121 (140)
...|+.
T Consensus 157 ~~~~Ig 162 (172)
T 3h0g_G 157 EIFAIA 162 (172)
T ss_dssp CEEEEE
T ss_pred CceEEE
Confidence 444444
No 34
>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=91.66 E-value=0.99 Score=33.48 Aligned_cols=56 Identities=23% Similarity=0.268 Sum_probs=44.1
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C----------------cCCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y----------------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~----------------~~l~Gd~V~F~v~~~~ 111 (140)
+...|..+.|+|+.-.. ||+-...++ -|-++|++.+..+ + ....||.|.+++...+
T Consensus 78 ~p~~Gev~~G~V~~v~~---~G~fv~l~~-~~glvh~s~l~~d~~~~d~~~~~~~g~~~~~~~~~Gd~VrvkV~~v~ 150 (180)
T 4ayb_E 78 VPVVQEVVEGEVLQVDN---YGVFVNLGP-MDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVA 150 (180)
T ss_dssp CCCTTCEEEEEEEEEET---TEEEEECSS-SEEEEEGGGSCSSCEEECSSSCCEEETTTCCCCCTTCEEEEEEEEEC
T ss_pred eccCCCEEEEEEeeecc---ceEEEEECC-ccceEEeeecCCCccccchhcceEEEeccCeEECCCCEEEEEEEEEe
Confidence 45579999999999874 777666654 7899999999765 2 2459999999998765
No 35
>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=90.76 E-value=1.5 Score=38.59 Aligned_cols=66 Identities=18% Similarity=0.168 Sum_probs=52.0
Q ss_pred cCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC---------------cCCCCCEEEEEEEecCCCCCCce
Q psy3654 54 LQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY---------------VPLPGDEVKYRLCPIPPKFEKNQ 118 (140)
Q Consensus 54 ~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~---------------~~l~Gd~V~F~v~~~~k~~~g~~ 118 (140)
..|.++.|+|+.--+.-+--||....+ .+-|+|++++...+ .+.+||.|..++...+.+.+|..
T Consensus 44 ~vGnIY~GkV~rv~p~~~aAFVdiG~g-k~gfLhisei~~~~~~~~~~~~~~~~i~d~lk~Gq~VlVQV~Ke~~g~KGa~ 122 (517)
T 2bx2_L 44 KKANIYKGKITRIEPSLEAAFVDYGAE-RHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNKGAA 122 (517)
T ss_dssp CTTCEEEEEEEEEETTTTEEEEESSSS-SCEEEEGGGSCGGGCC-------CCCGGGTCCTTCEEEEEEEECCCTTCCCE
T ss_pred CCCCEEEEEEEEeccCCceEEEEeCCC-cEEEEEHHHcChhhhccccccccccchhhhccCCCEEEEEEEeeccccCCce
Confidence 458899999999988777899998874 78999999985321 24499999999999886556655
Q ss_pred EE
Q psy3654 119 AV 120 (140)
Q Consensus 119 A~ 120 (140)
.+
T Consensus 123 lT 124 (517)
T 2bx2_L 123 LT 124 (517)
T ss_dssp EE
T ss_pred EE
Confidence 43
No 36
>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=89.95 E-value=1.5 Score=32.56 Aligned_cols=57 Identities=19% Similarity=0.169 Sum_probs=42.7
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-----------------CcCCCCCEEEEEEEecCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-----------------YVPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-----------------~~~l~Gd~V~F~v~~~~k 112 (140)
+...|..+.|+|+.-.. ||+.....+ .+-|+|++++..+ .....||.|.+++...+.
T Consensus 78 ~~~~Gev~~G~V~~v~~---~G~fV~l~~-~eglvhis~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd~ 151 (187)
T 1go3_E 78 IPEMYELIEGEVVDVVE---FGSFVRLGP-LDGLIHVSQIMDDYVSYDPKREAIIGKETGKVLEIGDYVRARIVAISL 151 (187)
T ss_dssp CCCTTCEEEEEEEEEET---TEEEEECSS-SEEEEEGGGSCSSCEEECCC--CEEETTTCCEECTTCEEEEEEEEEEC
T ss_pred ccCCCCEEEEEEEEEeC---cEEEEEEcC-ccEEEEhHHhCCCcceECCccceEEecCCCeEEcCCCEEEEEEEEEEc
Confidence 45578999999999874 675555544 7999999998643 123499999999987653
No 37
>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=89.70 E-value=0.45 Score=35.22 Aligned_cols=56 Identities=16% Similarity=0.286 Sum_probs=41.5
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC--C----------------cCCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC--Y----------------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~--~----------------~~l~Gd~V~F~v~~~~ 111 (140)
+...|+.+.|+|+.-.. ||+....+.. +.|+|++.+... + ....||.|++++...+
T Consensus 78 ~~~~Gev~~G~V~~v~~---fG~fV~l~~~-~glvhis~l~~~~~~d~~~~~~~~~~~~~~~~~~~Gd~V~vkV~~vd 151 (172)
T 2c35_B 78 RPFKGEVVDAVVTQVNK---VGLFTEIGPM-SCFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLKIVGTR 151 (172)
T ss_dssp CCCTTCEEEEEEEEEET---TEEEEEETTE-EEEEEGGGSCTTEEEESSSSSCEEEETTSCSEEETTCEEEEEEEEEE
T ss_pred eCCCCCEEEEEEEEEeC---CEEEEEECCE-EEEEEHHHCCCCcEECCCCCccEEEeCCCCEEECCCCEEEEEEEEEE
Confidence 34579999999999874 7876665554 599999998643 1 1227999999987754
No 38
>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}
Probab=89.69 E-value=0.39 Score=41.46 Aligned_cols=65 Identities=18% Similarity=0.249 Sum_probs=46.5
Q ss_pred eeeeEEEEeeCCCceeEEecC-----CCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceE-EEEEecC
Q psy3654 58 VETGKIKEFCRSKGHGFITPD-----SGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQA-VHVEIVH 126 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~-----~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A-~~V~~~~ 126 (140)
...|++--. ..||||++.. .+.+||||..+.|+.. .++.||.|.=.+..-.. .+++-| ..|.-++
T Consensus 57 ~~~g~le~~--~~g~gflr~~~~~y~~~~~d~yvs~~~ir~~-~lr~gd~v~g~~r~~~~-~e~~~~l~~v~~vn 127 (427)
T 3l0o_A 57 FGEGVLEIH--PEGFGFLRRIEDNLLPSNDDIYISPSQIRKF-NLNTGDIISGVIRKPKE-GEKYFAMIKIEAIN 127 (427)
T ss_dssp EEEEEEEEC--TTSCEEEECGGGTTCCCSSCEEECHHHHHHT-TCCTTCEEEEEEECCCS-SSCSEEEEEEEEET
T ss_pred eEEEEEEEc--CCCceEeeCCccCCCCCCCCeeeCHHHHHhc-CCCCCCEEEEEEeCCCC-CcccccceEEEecC
Confidence 456777765 4699999987 3678999999998774 57799999988876432 234444 4555555
No 39
>3go5_A Multidomain protein with S1 RNA-binding domains; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.40A {Streptococcus pneumoniae}
Probab=89.37 E-value=0.67 Score=37.53 Aligned_cols=55 Identities=16% Similarity=0.124 Sum_probs=42.5
Q ss_pred ccCCceeeeEEEEeeCCCceeEEe-cCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFIT-PDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~-~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k 112 (140)
-..|..+.|+|....+ ||+.. .-+++-+-|+|+|++.. .+..||+|+..+...++
T Consensus 150 ~~~G~~V~g~V~~i~~---~G~fV~~i~~g~~Glih~SEl~~--~l~~Gd~v~~~V~~id~ 205 (285)
T 3go5_A 150 NMQNQNWPAIVYRLKL---SGTFVYLPENNMLGFIHPSERYA--EPRLGQVLDARVIGFRE 205 (285)
T ss_dssp CCTTCEEEEEEEEEET---TEEEEEETTTTEEEEECGGGCSS--CCCTTCEEEEEEEEEET
T ss_pred CCCCCEEEEEEEEEeC---CcEEEEEeCCCeEEEEEHHHccc--cCCCCCEEEEEEEEEEC
Confidence 3468899999999864 56444 44445789999999975 36799999999987653
No 40
>2a19_A EIF-2- alpha, eukaryotic translation initiation factor 2 alpha; transferase, protein biosynthesis, protein synthesis transferase complex; HET: TPO ANP; 2.50A {Saccharomyces cerevisiae} PDB: 2a1a_A* 1q46_A
Probab=88.24 E-value=1.2 Score=33.57 Aligned_cols=55 Identities=5% Similarity=0.059 Sum_probs=38.6
Q ss_pred CCceeeeEEEEeeCCCcee-EEecC-CCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 55 QNPVETGKIKEFCRSKGHG-FITPD-SGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfG-FI~~~-~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
.|..+.|+|+... -|| |+..+ .++-+=|+|+|++...+ .+..||.|..++...++
T Consensus 15 ~G~iv~G~V~~i~---~fGaFV~L~e~~gveGLvhiSels~~~v~~~~~~~~vGd~V~vkVl~vd~ 77 (175)
T 2a19_A 15 IDDIVMVNVQQIA---EMGAYVKLLEYDNIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLRVDK 77 (175)
T ss_dssp TTCEEEEEEEEEE---TTEEEEEETTTTTCEEEEECC--------CCCCCCCTTSEEEEEEEEEET
T ss_pred CCCEEEEEEEEEe---cceEEEEEcCCCCcEEEEEHHHcCCcccCCHHHcCCCCCEEEEEEEEEEC
Confidence 6889999999984 488 66664 24578999999997541 23499999999988753
No 41
>1kl9_A Eukaryotic translation initiation factor 2 subuni; OB fold, helical domain; 1.90A {Homo sapiens} SCOP: a.60.14.1 b.40.4.5
Probab=87.05 E-value=1.1 Score=34.07 Aligned_cols=56 Identities=7% Similarity=0.045 Sum_probs=40.5
Q ss_pred cCCceeeeEEEEeeCCCcee-EEecC-CCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 54 LQNPVETGKIKEFCRSKGHG-FITPD-SGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 54 ~~g~~~~G~VK~f~~~KGfG-FI~~~-~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
..|..+.|+|+... -|| |+..+ .++-+=++|+|++...+ .+..||.|..++...++
T Consensus 14 ~~G~iv~G~V~~I~---~fGaFV~L~e~~g~eGLvhiSels~~~v~~~~~~~~vGd~V~VkVl~vD~ 77 (182)
T 1kl9_A 14 EVEDVVMVNVRSIA---EMGAYVSLLEYNNIEGMILLSELSRRRIRSINKLIRIGRNECVVVIRVDK 77 (182)
T ss_dssp CTTCEEEEEEEEEC---SSEEEEEETTTTTEEEEEEGGGC------------CTTCEEEEEEEEEET
T ss_pred CCCCEEEEEEEEEe---ccEEEEEEccCCCcEEEEEHHHCCCcccCCHHHhcCCCCEEEEEEEEEEC
Confidence 46889999999975 488 66664 34578999999997541 23499999999988653
No 42
>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=86.44 E-value=1.6 Score=35.77 Aligned_cols=55 Identities=9% Similarity=0.141 Sum_probs=43.0
Q ss_pred CCceeeeEEEEeeCCCcee-EEecCC-CCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 55 QNPVETGKIKEFCRSKGHG-FITPDS-GEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfG-FI~~~~-g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
.|..+.|+|+...+ || ||...+ ++-+-|+|+|+|...+ ....||.|..++...++
T Consensus 13 vG~iv~G~V~~I~~---fGaFV~L~ey~gveGLvhiSels~~~i~~~~~~~kvGd~V~VkVl~vD~ 75 (308)
T 1q8k_A 13 VEDVVMVNVRSIQE---MGAYVSLLEYNNIEGMIHLSELSRRRIRSINKLIRIGRNECVKVIRVDK 75 (308)
T ss_dssp SCCEEEEEEEEEET---TEEEEESCTTTSCCEEECGGGTSCSSCSCCTTTCSSSCEEEEEEEEEET
T ss_pred CCCEEEEEEEEEeC---cEEEEEECCCCCeEEEEEhHHcCcccccCHHHhcCCCCEEEEEEEEEeC
Confidence 68899999999865 77 666653 5689999999996531 23499999999988764
No 43
>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=85.83 E-value=1.1 Score=40.76 Aligned_cols=50 Identities=18% Similarity=0.260 Sum_probs=40.8
Q ss_pred CCceeeeEEEEeeCCCce--eEEecCCCCCeEEEEE-ccccCCCcCCCCCEEEEEEEe
Q psy3654 55 QNPVETGKIKEFCRSKGH--GFITPDSGEPAVFVHI-SDIEGCYVPLPGDEVKYRLCP 109 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGf--GFI~~~~g~~dIFfH~-s~l~~~~~~l~Gd~V~F~v~~ 109 (140)
.|..++|++.- ..+|| ||+..++.++|||+.- .++.. -..||.|..++..
T Consensus 29 ~g~l~~G~l~~--~~~~~~~gfv~~~~~~~di~I~~~~~~n~---A~~GD~V~V~i~~ 81 (760)
T 2vnu_D 29 NGVLYQGNIQI--SEYNFLEGSVSLPRFSKPVLIVGQKNLNR---AFNGDQVIVELLP 81 (760)
T ss_dssp HTSEEEEEEEE--CSSBTTEEEECCSSSSSCEEEESHHHHTT---CCTTCEEEEEECC
T ss_pred cCCEEEEEEEE--ecCCCccEEEEcCCCCCCEEEcChhhhcc---ccCCCEEEEEEec
Confidence 57789999987 46799 9999998788999986 55544 5689999999864
No 44
>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A
Probab=84.67 E-value=0.84 Score=39.32 Aligned_cols=66 Identities=23% Similarity=0.354 Sum_probs=45.7
Q ss_pred ceeeeEEEEeeCCCceeEEecC-----CCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceE-EEEEecC
Q psy3654 57 PVETGKIKEFCRSKGHGFITPD-----SGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQA-VHVEIVH 126 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~-----~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A-~~V~~~~ 126 (140)
....|++--. ..||||++.. .+.+||||..+.|+.. .++.||.|.=.+..-. ..+++-| ..|..++
T Consensus 52 ~~~~g~le~~--~~g~gflr~~~~~~~~~~~d~yvs~~~ir~~-~lr~gd~v~g~~r~~~-~~ER~faLl~v~~vn 123 (422)
T 3ice_A 52 IFGDGVLEIL--QDGFGFLRSADSSYLAGPDDIYVSPSQIRRF-NLRTGDTISGKIRPPK-EGERYFALLKVNEVN 123 (422)
T ss_dssp CEEEEEEEEC--TTSCEEEECGGGTTCCCTTCEEBCHHHHHHH-TCCTTCEEEEEEECCC-SSCCSEEEEEEEEES
T ss_pred eEEEEEEEEc--CCCceEeeCCCcCCCCCCCCeeeCHHHHHhc-CCCCCCEEEEEEeCCC-ccchHHHHhccCccc
Confidence 3566877766 4699999985 3668999999998774 5779999998886533 2334333 4444443
No 45
>2l55_A SILB,silver efflux protein, MFP component of the components proton antiporter metal...; APO form, AG(I)-binding site; NMR {Cupriavidus metallidurans}
Probab=83.97 E-value=5 Score=26.58 Aligned_cols=65 Identities=14% Similarity=0.034 Sum_probs=39.7
Q ss_pred eeeEEEEeeCCCceeEEecCCC--------CCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecCCCC
Q psy3654 59 ETGKIKEFCRSKGHGFITPDSG--------EPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTP 129 (140)
Q Consensus 59 ~~G~VK~f~~~KGfGFI~~~~g--------~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p 129 (140)
..|+|+..+... |+...+ ..-.-|...+=..-..+.+||.|.|++...+. +++.-+.|+....+.
T Consensus 6 ~~G~V~~vd~~~----iTi~H~pI~~l~wPaMTM~F~v~~~~~l~~lk~Gd~V~F~~~~~~~--g~~~it~i~~~~~~~ 78 (82)
T 2l55_A 6 AVGRIQSIGERS----LIIAHEAIPSAQWGAMTMEFAAPPAGLPQGLKAGDRVAFSFRLDPH--GMATLVTVAPQVQTA 78 (82)
T ss_dssp EEEEEEECCSSE----EEEEECCCTTTTCCCEEEEEECCTTCCCSSCSTTCEEEEEEEEETT--TEEEEEEEEECCSSC
T ss_pred EeEEEEEEcccc----EEEecCCccccCCCceEEEEEcCChhHhhcCCCCCEEEEEEEECCC--CeEEEEEEEecCCCC
Confidence 579999998764 555432 12233332221111235599999999998762 368888888765433
No 46
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae}
Probab=82.50 E-value=1.9 Score=40.48 Aligned_cols=50 Identities=18% Similarity=0.260 Sum_probs=41.0
Q ss_pred CCceeeeEEEEeeCCCce--eEEecCCCCCeEEEEE-ccccCCCcCCCCCEEEEEEEe
Q psy3654 55 QNPVETGKIKEFCRSKGH--GFITPDSGEPAVFVHI-SDIEGCYVPLPGDEVKYRLCP 109 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGf--GFI~~~~g~~dIFfH~-s~l~~~~~~l~Gd~V~F~v~~ 109 (140)
.|..++|++.- ..+|| ||+.++++++|||+.- .++.. -..||.|..++..
T Consensus 246 ~g~l~~G~l~v--~~~~~~egfV~~~~~~~DI~I~~~~~~n~---A~~GD~V~V~i~~ 298 (977)
T 2wp8_J 246 NGVLYQGNIQI--SEYNFLEGSVSLPRFSKPVLIVGQKNLNR---AFNGDQVIVELLP 298 (977)
T ss_dssp TTSSEEEEEEE--CSSBTTEEEECCTTCSSCEEEESHHHHTT---CCTTCEEEEEECC
T ss_pred cCCEEEEEEEE--ccCCCccEEEEcCCCCCCEEEcChHHhhh---CcCCCEEEEEEec
Confidence 57889999887 46899 9999998889999986 55544 5689999999864
No 47
>2qcp_X Cation efflux system protein CUSF; silver-binding, copper-binding, beta barrel, OB-fold, metall metal resistance, metal-binding; 1.00A {Escherichia coli str} PDB: 1zeq_X 3e6z_X
Probab=80.84 E-value=7 Score=25.66 Aligned_cols=62 Identities=15% Similarity=0.101 Sum_probs=38.2
Q ss_pred eeeeEEEEeeCCCceeEEecCCCC--------CeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEe
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGE--------PAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEI 124 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~--------~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~ 124 (140)
...|+|+..+...| -|+...+. .-.-|...+=..-..+.+||.|.|++.... +++.-+.|+.
T Consensus 9 ~~~G~V~~id~~~~--~iTi~H~pI~~l~wpaMTM~F~v~~~~~l~~lk~Gd~V~F~~~~~~---~~~~it~i~~ 78 (80)
T 2qcp_X 9 SATGVVKGIDLESK--KITIHHDPIAAVNWPEMTMRFTITPQTKMSEIKTGDKVAFNFVQQG---NLSLLQDIKV 78 (80)
T ss_dssp EEEEEEEEEETTTT--EEEEEECCBGGGTBCSEEEEEECCTTCEECCCCTTCEEEEEEEEET---TEEEEEEEEE
T ss_pred EEEEEEEEEcCCCC--EEEEEcCCcccCCCCceEEEEEccChhhhhcCCCCCEEEEEEEEeC---CEEEEEEEEe
Confidence 57899999987654 46655421 222333221110024569999999999876 5777777654
No 48
>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=80.37 E-value=1.6 Score=34.82 Aligned_cols=56 Identities=14% Similarity=0.280 Sum_probs=43.0
Q ss_pred cCCceeeeEEEEeeCCCcee-EEecCC-CCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 54 LQNPVETGKIKEFCRSKGHG-FITPDS-GEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 54 ~~g~~~~G~VK~f~~~KGfG-FI~~~~-g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
..|..+.|+|+...+ || |+..++ ++.+-|+|+|++...+ .+..||.|..++...+.
T Consensus 10 ~vG~iv~G~V~~I~~---~GaFV~l~e~~~~~GlihiSels~~~v~~~~~~~~vGd~V~VkVi~vd~ 73 (266)
T 3cw2_C 10 SEGEILIATVKQVFD---YGSYVSLDEYGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRVDR 73 (266)
T ss_dssp CTTCEEEEEEEECCS---SSBEEEETTTTSEECBBCGGGSSCSSCCCHHHHSCTTCEEEEEECCCCS
T ss_pred CCCCEEEEEEEEEec---cEEEEEEcCCCCeEEEEEhHHcCcccccCHHHhCcCCCEEEEEEEEEeC
Confidence 468899999999854 77 666653 5678999999997542 24599999999987653
No 49
>2vb2_X Copper protein, cation efflux system protein CUSF; cation PI, metal-binding, metal transport, copper tolerance, transport; 1.70A {Escherichia coli} PDB: 2vb3_X
Probab=80.31 E-value=7.1 Score=26.12 Aligned_cols=62 Identities=15% Similarity=0.101 Sum_probs=38.3
Q ss_pred eeeeEEEEeeCCCceeEEecCCCC--------CeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEe
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGE--------PAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEI 124 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~--------~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~ 124 (140)
...|+|+..+...| -|+...+. .-.-|.+.+=..-..+.+||.|.|++.... +++.-+.|+.
T Consensus 17 ~~~G~V~~id~~~~--~iTi~H~pI~~l~wpaMTM~F~v~~~~~l~~lk~Gd~V~F~~~~~~---~~~~it~i~~ 86 (88)
T 2vb2_X 17 SATGVVKGIDLESK--KITIHHDPIAAVNWPEMTMRFTITPQTKMSEIKTGDKVAFNFVQQG---NLSLLQDIKV 86 (88)
T ss_dssp EEEEEEEEEETTTT--EEEEEECCBGGGTBCSEEEEEECCTTCEECCCCTTCEEEEEEEEET---TEEEEEEEEE
T ss_pred EEEEEEEEEcCCCC--EEEEecCCcccCCCCceEEEEEcCChhhhhcCCCCCEEEEEEEEeC---CEEEEEEEEe
Confidence 57899999987654 46554321 222233221110024569999999999876 5777777654
No 50
>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=74.95 E-value=6.3 Score=32.83 Aligned_cols=53 Identities=15% Similarity=0.038 Sum_probs=40.2
Q ss_pred CCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecC
Q psy3654 55 QNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIP 111 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~ 111 (140)
.|.+++|+|+..+ ++.=||.. |+-+-|+|.+++........||+|+..+..-.
T Consensus 134 ~GeIV~G~V~ri~--~~~v~VDl--Gk~EgiLp~sE~ip~E~~~vGD~Vkv~V~~V~ 186 (344)
T 1hh2_P 134 KGTVTTAEVIRVM--GEWADIRI--GKLETRLPKKEWIPGEEIKAGDLVKVYIIDVV 186 (344)
T ss_dssp TTCEEEEEEEEEC--SSEEEEEE--TTEEEEEEGGGSCTTCCCCTTCEEEEEEEEEE
T ss_pred CCCEEEEEEEEEe--cCcEEEEe--CCeEEEEeHHHcCCCcCCCCCCEEEEEEEEEE
Confidence 5889999999986 34335544 36799999999864445669999999887655
No 51
>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=72.74 E-value=8.3 Score=30.45 Aligned_cols=55 Identities=16% Similarity=0.144 Sum_probs=41.2
Q ss_pred cCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC---------cCCCCCEEEEEEEecC
Q psy3654 54 LQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY---------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 54 ~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~---------~~l~Gd~V~F~v~~~~ 111 (140)
..|+.+.|+|..-.. ||+...-+..-+-++|++++.+.+ .+.+||.|..++....
T Consensus 73 ~~GDiV~G~V~~v~~---~ga~VdI~~~~~GlL~isei~~~~~~~~~~~~~~l~vGD~V~arVi~v~ 136 (251)
T 2je6_I 73 KINDIVIGLVEDVEI---YGWVVDIKAPYKAYLPASNLLGRSINVGEDLRRYLDVGDYVIARIENFD 136 (251)
T ss_dssp CTTCEEEEEEEEECS---SEEEEECSSSSCEEEEHHHHHTSCCCTTCCCSSSCCTTCEEEEEEEEEE
T ss_pred CCCCEEEEEEEEEeC---ceEEEEcCCCeEEEEEHHHhcCCccccccchhhcCCCCCEEEEEEEEEC
Confidence 468899999999853 455444444568999999998542 2459999999988765
No 52
>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=71.28 E-value=3.1 Score=38.27 Aligned_cols=58 Identities=21% Similarity=0.213 Sum_probs=42.9
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
....|..+.|+|+... .||+....+.+.+-++|+|+|...+ ....||.|..++...+.
T Consensus 651 ~l~vG~iv~G~V~~V~---~fGaFV~l~~~~eGLVhiS~Lsd~~v~d~~~~~~vGd~V~VkVi~VD~ 714 (785)
T 3bzc_A 651 DLKPGMVLEGVVTNVT---NFGAFVDIGVHQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDI 714 (785)
T ss_dssp TCCTTCBCCCEEEEEE---TTEEEEECSSSSEEEEETTTSCSSCCSCHHHHCCTTCCCCCBEEEEET
T ss_pred hcCCCCEEEEEEEEEe---cCCeEEEeCCCcEEEEEHHHcCccccCChhheeCCCCEEEEEEEEEEC
Confidence 3457899999999985 4784444444679999999997652 24499999988877653
No 53
>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=67.60 E-value=10 Score=33.75 Aligned_cols=55 Identities=9% Similarity=0.085 Sum_probs=39.3
Q ss_pred CCc--eeeeEEEEeeCCCceeE-EecCCCCCeEEEEEccccC--C-C---------------cCCCCCEEEEEEEecCC
Q psy3654 55 QNP--VETGKIKEFCRSKGHGF-ITPDSGEPAVFVHISDIEG--C-Y---------------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 55 ~g~--~~~G~VK~f~~~KGfGF-I~~~~g~~dIFfH~s~l~~--~-~---------------~~l~Gd~V~F~v~~~~k 112 (140)
.|. .+.|+|.... .||| +...+.|-+.|+|+++|.. + + ....||.|+-++...+.
T Consensus 558 vGe~~~f~g~V~~V~---~~G~fV~L~~~gieGlVhis~l~~~~d~~~~d~~~~~l~~~~~~~~~lGD~V~VkV~~vd~ 633 (644)
T 2id0_A 558 AGTDTRFAAEIVDIS---RGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETVYKVTDVIDVTIAEVRM 633 (644)
T ss_dssp TTSCCCEEEEEEEEE---TTEEEEEETTTCCEEEEEGGGTCSCGGGEEEETTTTEEEETTEEEEETTCEEEEEEEEEET
T ss_pred cCCCceEEEEEEEEe---CCceEEEEcCCcEEEEEEchhccCcCceeEEcccccEEEecCCCEeCCCCEEEEEEEEEeC
Confidence 466 8999999876 3665 5555667899999999963 1 1 12378888888877653
No 54
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces cerevisiae}
Probab=67.29 E-value=12 Score=36.13 Aligned_cols=57 Identities=12% Similarity=0.167 Sum_probs=44.0
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC-------cCCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY-------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~-------~~l~Gd~V~F~v~~~~ 111 (140)
....|.++.|+|+..- -||.....+.|.+=+||+|+|...+ ....||.|..++...+
T Consensus 899 ~l~~G~iv~G~V~~V~---~fGaFV~L~~gveGLVHiSelsd~~~v~~p~~v~kvGd~V~vkVl~VD 962 (1219)
T 3psi_A 899 TFFKGSIIPVRVERFW---HNDIICTTNSEVECVVNAQRHAGAQLRRPANEIYEIGKTYPAKVIYID 962 (1219)
T ss_dssp TSCTTCEEEEEEEEEC---SSCEEEECTTSCEEEECTTSSSSTTSCSCSTTTSCTTCEEEEEEEEEE
T ss_pred hCCCCCEEEEEEEEEe---cceEEEEeCCCceEEEEHHHcCCCcccCCHHHcCCCCCEEEEEEEEEE
Confidence 3447999999999874 4776555566689999999997652 2349999999998765
No 55
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A
Probab=64.61 E-value=1.4 Score=40.32 Aligned_cols=57 Identities=25% Similarity=0.238 Sum_probs=0.0
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+..- -||......++.+=++|+|+|..++ .+..||.|..++...++
T Consensus 635 ~~vG~v~~G~V~~I~---~fGaFVel~~g~eGLvHiSels~~rv~~~~d~~kvGD~V~VkVi~iD~ 697 (726)
T 4aid_A 635 AEVGKIYDGKVVKVV---DFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFDD 697 (726)
T ss_dssp ------------------------------------------------------------------
T ss_pred hcCCcEEEEEEEEEe---ccEEEEEECCCcEEEEEHHHcCcccccCccccCCCCCEEEEEEEEECC
Confidence 345889999999874 5886655555689999999998752 24599999999988764
No 56
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A
Probab=63.04 E-value=1.5 Score=39.91 Aligned_cols=56 Identities=25% Similarity=0.299 Sum_probs=0.0
Q ss_pred ccCCceeeeEEEEeeCCCcee-EEecCCCCCeEEEEEccccCCC------cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHG-FITPDSGEPAVFVHISDIEGCY------VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfG-FI~~~~g~~dIFfH~s~l~~~~------~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+..- -|| |+...+ +.+-|+|+|++..++ .+..||.|..++...++
T Consensus 625 ~~vG~i~~G~V~~i~---~fGaFVel~~-g~eGLvHiSel~~~~v~~~~~~~~vGd~V~VkVi~vd~ 687 (723)
T 3cdi_A 625 IEVGRVYTGKVTRIV---DFGAFVAIGG-GKEGLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVDR 687 (723)
T ss_dssp -------------------------------------------------------------------
T ss_pred hhcCcEEEEEEEEEe---cceEEEEeCC-CceEEEEHHHcCCccccCcccccCCCCEEEEEEEEECC
Confidence 446889999999874 488 555544 579999999997641 24599999999887653
No 57
>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=59.81 E-value=21 Score=27.57 Aligned_cols=57 Identities=14% Similarity=0.151 Sum_probs=41.6
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC---------C-cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC---------Y-VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~---------~-~~l~Gd~V~F~v~~~~k 112 (140)
...|+.+.|+|..-.. +|+...-+..-+-++|++++.+. . .+.+||.|..++....+
T Consensus 64 p~~GDiV~G~V~~v~~---~~~~V~I~~~~~g~l~isei~~~~~~~~~~~~~~~l~~GD~V~a~Vi~v~~ 130 (235)
T 2z0s_A 64 PQAGDVVIGLIQSVGI---MNWFVDINSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYIKAKVVAFDK 130 (235)
T ss_dssp CCTTCCEEEEEEEECS---SEEEEECSSSSCEEEEHHHHHTSCCCTTTTCCTTSSCTTCEEEEEEEEECT
T ss_pred CCCCCEEEEEEEEEeC---CeEEEEeCCCeEEEEEHHHhCCCccccchhhHhhcCCCCCEEEEEEEEECC
Confidence 3468899999999854 44444444456899999999751 1 24599999999987653
No 58
>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=58.80 E-value=33 Score=26.44 Aligned_cols=57 Identities=21% Similarity=0.235 Sum_probs=41.8
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC------C-cCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC------Y-VPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~------~-~~l~Gd~V~F~v~~~~k 112 (140)
...|+.+.|+|..-.. +|+...-+...+-++|++++... . .+.+||.|..++....+
T Consensus 55 p~~GDiV~G~V~~v~~---~~a~V~I~~~~~g~l~isev~~~~~~~~~~~~l~~GD~V~arVi~v~~ 118 (229)
T 2ba0_A 55 PSVGDVVIGIIREVAA---NGWAVDIYSPYQAFLPVSENPEMKPNKKPNEVLDIGDAIIAKVLNIDP 118 (229)
T ss_dssp CCTTCEEEEEEEEECS---SEEEEECSSSSCEEEEGGGCTTCCTTSCGGGTCCTTCEEEEEEEEECT
T ss_pred CCCCCEEEEEEEEEeC---CeEEEEeCCCeEEEEEHHHccccccccchhcccCCCCEEEEEEEEECC
Confidence 3578999999999854 45544444456889999999842 1 24599999999987653
No 59
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Probab=56.08 E-value=19 Score=26.72 Aligned_cols=51 Identities=18% Similarity=0.152 Sum_probs=37.5
Q ss_pred CceeeeEEEEeeCCCcee-EEecCC---------CCCeEEEEEccccCC-----C-cCCCCCEEEEEEEe
Q psy3654 56 NPVETGKIKEFCRSKGHG-FITPDS---------GEPAVFVHISDIEGC-----Y-VPLPGDEVKYRLCP 109 (140)
Q Consensus 56 g~~~~G~VK~f~~~KGfG-FI~~~~---------g~~dIFfH~s~l~~~-----~-~~l~Gd~V~F~v~~ 109 (140)
|+.+.|+|+.-.. || |+.... .+-+=++|++++... . .+.+||.|.-++..
T Consensus 58 GdiV~G~V~~V~~---~ga~V~I~~v~~~~~~~~~~~~Gll~isei~~~~~~~~~~~~~~GD~V~akVi~ 124 (179)
T 3m7n_A 58 GDVVLGRVVDLRN---SIALIEVSSKKGENRGPSNRGIGILHVSNVDEGYVKEISEAVGYLDILKARVIG 124 (179)
T ss_dssp TCEEEEEEEEECS---SEEEEEEEEETTCCSCCTTCEEEEEEGGGTTSSCCSSGGGTCCTTCEEEEEEEE
T ss_pred CCEEEEEEEEEeC---CcEEEEEccccCcccccccCeeEEEEHHHcCcchhhCHhhcCCCCCEEEEEEEC
Confidence 9999999999853 33 444432 146889999999764 1 23499999998876
No 60
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}
Probab=54.15 E-value=8.2 Score=24.73 Aligned_cols=13 Identities=15% Similarity=0.232 Sum_probs=10.5
Q ss_pred CCCceeEEecCCC
Q psy3654 68 RSKGHGFITPDSG 80 (140)
Q Consensus 68 ~~KGfGFI~~~~g 80 (140)
+.||||||+..+.
T Consensus 46 ~srGfaFV~F~~~ 58 (89)
T 3d2w_A 46 PFRAFAFVTFADD 58 (89)
T ss_dssp SCCSEEEEEESCH
T ss_pred CCCCEEEEEECCH
Confidence 3689999998763
No 61
>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=53.02 E-value=24 Score=29.69 Aligned_cols=62 Identities=6% Similarity=0.056 Sum_probs=42.7
Q ss_pred cCCceeeeEEEE----eeCCCceeEEecCCC--CCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCc
Q psy3654 54 LQNPVETGKIKE----FCRSKGHGFITPDSG--EPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKN 117 (140)
Q Consensus 54 ~~g~~~~G~VK~----f~~~KGfGFI~~~~g--~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~ 117 (140)
..|.+++|+|+. .. ++.=||....+ +.+-+++.+++........||+|...+..-.+..+|.
T Consensus 129 r~GeIVtG~V~r~~~~v~--~~~v~VdLG~~~~k~EgiLP~~EqiP~E~~~~GDrVkvyV~~V~~~~kgp 196 (366)
T 1k0r_A 129 REGEIVAGVIQRDSRANA--RGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREP 196 (366)
T ss_dssp CTTCEEEEEEECCHHHHH--TTCEEEEECCSSSCEEEEECGGGSCTTCCCCTTCEEEEEEEEEECCSSSC
T ss_pred cCCCEEEEEEEEcccccc--CCeEEEEeCCCccceEEEEcHHHcCCCccCCCCCEEEEEEEEEecCCCcc
Confidence 368999999999 75 34445554321 2688999988765445669999998887765433343
No 62
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}
Probab=52.72 E-value=14 Score=25.03 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=13.2
Q ss_pred eEEEEe--eCCCceeEEecCC
Q psy3654 61 GKIKEF--CRSKGHGFITPDS 79 (140)
Q Consensus 61 G~VK~f--~~~KGfGFI~~~~ 79 (140)
|.|+.. -..||||||...+
T Consensus 46 G~V~~v~i~~~kg~AFVef~~ 66 (100)
T 3r27_A 46 GPISYVVVMPKKRQALVEFED 66 (100)
T ss_dssp SCEEEEEEETTTTEEEEEESS
T ss_pred CCEEEEEEEcCCCEEEEEECC
Confidence 545433 2579999999875
No 63
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli}
Probab=49.22 E-value=40 Score=22.58 Aligned_cols=40 Identities=30% Similarity=0.330 Sum_probs=29.2
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC 94 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~ 94 (140)
....|..+.|+|..-. -||.....+++.+-++|+|+|...
T Consensus 58 ~l~~Ge~V~g~V~~i~---~fG~fv~l~~~~eGlvhis~i~~~ 97 (101)
T 2bh8_A 58 NPQQGDRVEGKIKSIT---DFGIFIGLDGGIDGLVHLSDISWA 97 (101)
T ss_dssp CCCTTCEEEEEEEECC---SEEEEECTTSCEEEEEEEEEEEEC
T ss_pred CCCCCCEEEEEEEEeC---CcEEEEEcCCCceEEEEHHHCccC
Confidence 3457888999998754 588554444468999999998643
No 64
>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=49.09 E-value=3 Score=38.20 Aligned_cols=56 Identities=21% Similarity=0.232 Sum_probs=28.3
Q ss_pred ccCCceeeeEEEEeeCCCcee-EEecCCCCCeEEEEEccc----cCC------CcCCCCCEEEEEEEecCC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHG-FITPDSGEPAVFVHISDI----EGC------YVPLPGDEVKYRLCPIPP 112 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfG-FI~~~~g~~dIFfH~s~l----~~~------~~~l~Gd~V~F~v~~~~k 112 (140)
...|..+.|+|+.. .-|| ||...+ +.+-|+|+|+| ... ..+..||.|..++...++
T Consensus 665 ~~vG~i~~G~V~~i---~~fGaFV~l~~-g~eGLvHiSel~~~~s~~rv~~~~~~~~vGd~V~VkVi~vd~ 731 (757)
T 1e3p_A 665 PEVGERILGSVVKT---TTFGAFVSLLP-GKDGLLHISQIRKLAGGKRVENVEDVLGVGQKVQVEIAEIDS 731 (757)
T ss_dssp --------CBEEEC---C-CSCEECCC----CCCCC-------------------CCSSCBCCCCCCCCCS
T ss_pred cccccEEEEEEEEc---cccEEEEEEcC-CcEEEEEhHHhccccCCCcccCcccccCCCCEEEEEEEEECC
Confidence 34688999999997 4588 555544 57899999999 443 124599999999988764
No 65
>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}
Probab=48.58 E-value=11 Score=25.56 Aligned_cols=21 Identities=14% Similarity=0.314 Sum_probs=14.5
Q ss_pred eeeEEEEe--eCCCceeEEecCC
Q psy3654 59 ETGKIKEF--CRSKGHGFITPDS 79 (140)
Q Consensus 59 ~~G~VK~f--~~~KGfGFI~~~~ 79 (140)
..|.|+.+ ...||||||+..+
T Consensus 30 q~G~V~~~~l~~~kGfaFVey~~ 52 (89)
T 2wbr_A 30 QHGPLVSFHPYLNQGIALCKYTT 52 (89)
T ss_dssp HHSCEEEEEEETTTTEEEEEESS
T ss_pred hhCCEEEEEEcCCCcEEEEEECC
Confidence 34555544 3579999999876
No 66
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae}
Probab=48.48 E-value=65 Score=24.70 Aligned_cols=56 Identities=11% Similarity=0.038 Sum_probs=38.3
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C--------------c-----CCCCCEEEEEEEec
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y--------------V-----PLPGDEVKYRLCPI 110 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~--------------~-----~l~Gd~V~F~v~~~ 110 (140)
+...|+.+.|+|+.-. .|||-...++.-+=.||++++..+ + + ...||.|.|++...
T Consensus 78 ~p~vGEv~~G~Is~Vt---~fGifVeL~g~~eglv~~s~l~~d~~~fd~~~~~~vg~~~e~t~~~~~~Gd~VrvrV~~v 153 (218)
T 2ckz_B 78 KPFLGEIVTGWISKCT---AEGIKVSLLGIFDDIFIPQNMLFEGCYYTPEESAWIWPMDEETKLYFDVNEKIRFRIERE 153 (218)
T ss_dssp CCCTTCEEEEEEEEEE---TTEEEEECTTSCCCEEEETTTSCTTCEEETTTTEEEEECC--CEEEECTTCEEEEEEEEE
T ss_pred cCCCCCEEEEEEEEEc---cCcEEEEccCccceEEEcHHHCCCCcEEcCcCceEEeeccccCCcEEcCCCEEEEEEEEE
Confidence 4456889999999986 478766664333445799888553 2 1 23788888888653
No 67
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces cerevisiae}
Probab=46.81 E-value=4.1 Score=38.62 Aligned_cols=56 Identities=13% Similarity=0.172 Sum_probs=0.0
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCC-------cCCCCCEEEEEEEecC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCY-------VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~-------~~l~Gd~V~F~v~~~~ 111 (140)
...|.++.|+|+..- .||.....+.+.+=+||+|+|...+ ....||.|..++...+
T Consensus 903 l~~G~iv~G~V~~V~---~fGaFV~L~~gveGLVHiSelsd~~~v~~~~~v~kvGd~V~vkVl~VD 965 (1030)
T 3psf_A 903 FFKGSIIPVRVERFW---HNDIICTTNSEVECVVNAQRHAGAQLRRPANEIYEIGKTYPAKVIYID 965 (1030)
T ss_dssp ------------------------------------------------------------------
T ss_pred hcCCCEEEEEEEEEc---cCeEEEEeCCCcEEEEEHHHcCCCcccCCHHHcCCCCCEEEEEEEEEE
Confidence 346889999999764 5886655555678999999997652 2349999999998765
No 68
>3ayh_B DNA-directed RNA polymerase III subunit RPC8; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=46.59 E-value=63 Score=24.26 Aligned_cols=55 Identities=18% Similarity=0.093 Sum_probs=38.3
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC-C------------------------cCCCCCEEEEE
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC-Y------------------------VPLPGDEVKYR 106 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~-~------------------------~~l~Gd~V~F~ 106 (140)
+...|+.+.|+|+.-. .||+-...+.-++ .||.+++..+ + ....||.|.|+
T Consensus 78 ~p~~GEv~~G~Vs~vt---~~GifV~lg~~eg-lv~~~~l~~d~~~fd~~~~~~v~~~~~~~~~~~~~~~~~~Gd~Vrvr 153 (203)
T 3ayh_B 78 RPFRGEVMLGKIKSCS---EEGIRVTISFFDD-IFIPKDMLFDPCVFRPDERAWVWKIEGEDGSEGTELYFDIDEEIRFQ 153 (203)
T ss_dssp CCCTTCEEEEEEEEEE---TTEEEEECSSCCC-EEEEGGGBCTTEEEEGGGTEEEEEECCCTTSCCEEEECCTTCEEEEE
T ss_pred ccCCCCEEEEEEEEEe---ccEEEEEEeCceE-EEEcHHhCCCCceECccCceEEeecccccccccCCcEEcCCCEEEEE
Confidence 4557899999999987 4777766643333 4788888543 1 13389999998
Q ss_pred EEec
Q psy3654 107 LCPI 110 (140)
Q Consensus 107 v~~~ 110 (140)
+...
T Consensus 154 V~~v 157 (203)
T 3ayh_B 154 IESE 157 (203)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8753
No 69
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Probab=45.59 E-value=11 Score=24.44 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=15.3
Q ss_pred eeEEEEeeCCCceeEEecCC
Q psy3654 60 TGKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 60 ~G~VK~f~~~KGfGFI~~~~ 79 (140)
.|.|+...-.+|||||+..+
T Consensus 47 ~G~v~~v~i~~g~afV~f~~ 66 (97)
T 2xnq_A 47 YGHIMQINIKNAFGFIQFDN 66 (97)
T ss_dssp GSCEEEEEECSSEEEEEESS
T ss_pred cCCEEEEEEeCCEEEEEECC
Confidence 46666666679999999866
No 70
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=42.88 E-value=12 Score=23.92 Aligned_cols=19 Identities=11% Similarity=0.310 Sum_probs=15.6
Q ss_pred eEEEEeeCCCceeEEecCC
Q psy3654 61 GKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 61 G~VK~f~~~KGfGFI~~~~ 79 (140)
|.|......+|||||+..+
T Consensus 42 g~v~~~~~~~g~afV~f~~ 60 (99)
T 2cpd_A 42 GAVERVKKIRDYAFVHFSN 60 (99)
T ss_dssp TCEEEEEECSSEEEEEESS
T ss_pred cceEEEEEeCCeEEEEeCC
Confidence 6777777789999998866
No 71
>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=42.56 E-value=84 Score=23.31 Aligned_cols=55 Identities=16% Similarity=0.130 Sum_probs=41.0
Q ss_pred cCCceeeeEEEEeeCCCceeEEecCCC-CCeEEEEEccccCC----C-cCCCCCEEEEEEEecC
Q psy3654 54 LQNPVETGKIKEFCRSKGHGFITPDSG-EPAVFVHISDIEGC----Y-VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 54 ~~g~~~~G~VK~f~~~KGfGFI~~~~g-~~dIFfH~s~l~~~----~-~~l~Gd~V~F~v~~~~ 111 (140)
..|+.+.|+|..-. ++++...-.. ..+.++|++++.+. . .+.+||.|.-++....
T Consensus 6 ~~gDvViG~V~~v~---~~~~~VdI~~~~~~a~L~~s~~~g~~k~~r~~l~~GDlV~ArV~~~~ 66 (175)
T 2ja9_A 6 SVNDFVIGVIIGTF---SDSYKVSLQNFSSSVSLSYMAFPNASKKNRPTLQVGDLVYARVCTAE 66 (175)
T ss_dssp CTTCEEEEEEEEEC---SSEEEEESSTTSCCEEEETTSSTTCCSSSCCCCCTTCEEEEEEEECC
T ss_pred CCcCEEEEEEEEEE---CcEEEEEECCCCccEEEEHHHCCchhhhhhccCCCCCEEEEEEEEec
Confidence 35788999998863 4566555555 57899999999854 2 2349999999988764
No 72
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=41.17 E-value=16 Score=24.88 Aligned_cols=12 Identities=25% Similarity=0.573 Sum_probs=10.0
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
.+||||||+..+
T Consensus 50 ~~kGfaFVeF~~ 61 (105)
T 1sjq_A 50 KGKNQAFIEMNT 61 (105)
T ss_dssp TTTTEEEEEESS
T ss_pred cCCCEEEEEECC
Confidence 468999999876
No 73
>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=36.85 E-value=97 Score=23.45 Aligned_cols=56 Identities=13% Similarity=0.018 Sum_probs=38.0
Q ss_pred ccCCceeeeEEEEeeCCCceeE-EecC-------CCCCeEEEEEccccCCC----c----CCCCCEEEEEEEecC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGF-ITPD-------SGEPAVFVHISDIEGCY----V----PLPGDEVKYRLCPIP 111 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGF-I~~~-------~g~~dIFfH~s~l~~~~----~----~l~Gd~V~F~v~~~~ 111 (140)
...|..+.|+|..... ||+ +... ..+-+=++|++++...+ . +.+||.|..++....
T Consensus 79 p~vGDvV~G~V~~v~~---~~a~V~I~~v~~~~L~~~~~GlIhisei~~~~~~~~~~~~~l~~GD~V~akVisi~ 150 (209)
T 2nn6_I 79 PDVGAIVTCKVSSINS---RFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGDIVLAKVISLG 150 (209)
T ss_dssp CCTTCEEEEEEEEECS---SEEEEEEEESSSSCCCCSSCSCEEEEGGGTCSSCCCCGGGTCCSSSEEEEEEEEEE
T ss_pred CCCCCEEEEEEEEEEC---ceEEEEECccccccccCCceeEEEHHHcccccccccchhhhcCCCCEEEEEEEEEe
Confidence 4578999999999853 444 3421 11234568999997541 1 459999999987764
No 74
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}
Probab=35.36 E-value=25 Score=21.45 Aligned_cols=11 Identities=36% Similarity=0.398 Sum_probs=8.9
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 46 ~~g~afV~f~~ 56 (81)
T 2krb_A 46 TKGYIFLEYAS 56 (81)
T ss_dssp CCCEEEEEESS
T ss_pred EeEEEEEEECC
Confidence 47999998765
No 75
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
Probab=35.34 E-value=22 Score=23.63 Aligned_cols=12 Identities=8% Similarity=0.141 Sum_probs=10.0
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 49 ~~kg~aFVef~~ 60 (104)
T 1wex_A 49 PFKRQALVEFEN 60 (104)
T ss_dssp TTTTEEEEEESS
T ss_pred CCCCEEEEEECC
Confidence 468999999876
No 76
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A
Probab=35.23 E-value=4.2 Score=27.17 Aligned_cols=10 Identities=20% Similarity=0.564 Sum_probs=8.9
Q ss_pred CceeEEecCC
Q psy3654 70 KGHGFITPDS 79 (140)
Q Consensus 70 KGfGFI~~~~ 79 (140)
+|||||+..+
T Consensus 65 kg~afV~f~~ 74 (108)
T 2jvo_A 65 NGFAFVEFEE 74 (108)
T ss_dssp TTEEEEECSS
T ss_pred CCEEEEEECC
Confidence 8999999876
No 77
>4hti_A Receptor-type tyrosine-protein phosphatase N2; phogrin, IA-2BETA, protein-tyrosine phosphatase, transmembra protein, diabetes, autoimmunity; 1.95A {Homo sapiens} PDB: 4htj_A
Probab=35.05 E-value=12 Score=25.99 Aligned_cols=21 Identities=14% Similarity=0.214 Sum_probs=15.7
Q ss_pred CCCEEEEEEEecCCCCCCceEEEE
Q psy3654 99 PGDEVKYRLCPIPPKFEKNQAVHV 122 (140)
Q Consensus 99 ~Gd~V~F~v~~~~k~~~g~~A~~V 122 (140)
.|-.|+|++...++ ++.|.+|
T Consensus 50 ~g~aVTFrV~~N~~---n~taadV 70 (99)
T 4hti_A 50 LGPAVTFKVSANVQ---NVTTEDV 70 (99)
T ss_dssp ETTEEEEEECCCTT---CCCHHHH
T ss_pred cCceEEEEeccCCC---CCCHHHH
Confidence 56689999999884 6666544
No 78
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Probab=34.67 E-value=17 Score=23.79 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=10.0
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 51 ~srG~aFV~f~~ 62 (95)
T 2lkz_A 51 QNRGFAFVQLSS 62 (95)
T ss_dssp SCSSEEEEECSS
T ss_pred CCceEeEEEECC
Confidence 468999999876
No 79
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=33.62 E-value=17 Score=22.68 Aligned_cols=19 Identities=32% Similarity=0.433 Sum_probs=13.4
Q ss_pred eEEEEeeCCCceeEEecCC
Q psy3654 61 GKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 61 G~VK~f~~~KGfGFI~~~~ 79 (140)
|.|+...-.||||||+..+
T Consensus 33 G~i~~v~~~~g~afV~f~~ 51 (90)
T 2dnq_A 33 GKVLECDIIKNYGFVHIED 51 (90)
T ss_dssp SCEEEEEEETTEEEEEESS
T ss_pred CCEEEEEEECCEEEEEECC
Confidence 5555555559999998875
No 80
>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens}
Probab=33.08 E-value=1.1e+02 Score=20.36 Aligned_cols=40 Identities=15% Similarity=0.141 Sum_probs=33.5
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEG 93 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~ 93 (140)
-..|..+-|+|+.-+..++.=||..+|+ ..-+++..+|..
T Consensus 37 wsDGlfYLGTI~kV~~~~e~ClV~F~D~-S~~W~~~kdi~~ 76 (79)
T 2m0o_A 37 WTDGLLYLGTIKKVDSAREVCLVQFEDD-SQFLVLWKDISP 76 (79)
T ss_dssp CTTSCCCEEEEEEEETTTTEEEEEETTS-CEEEEETTTBCC
T ss_pred ecCCCEEeEEEEEeccCCCEEEEEEcCC-CeEEEEeecccc
Confidence 4468889999999999999999999986 568888888754
No 81
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=32.75 E-value=74 Score=20.55 Aligned_cols=37 Identities=22% Similarity=0.234 Sum_probs=23.6
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccc
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDI 91 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l 91 (140)
....|....|+|.|+|.. -..-.++.+..+.+...+|
T Consensus 27 ~L~tG~~l~G~i~WQD~~---cl~L~~~~~~~~LI~r~AI 63 (70)
T 3hfo_A 27 KLLTGDSLFGTIRWQDTD---GLGLVDDSERSTIVRLAAI 63 (70)
T ss_dssp EETTSCEEEEEEEEECSS---EEEEECTTCCEEEEEGGGE
T ss_pred EecCCCEEEEEEEEeCCC---EEEEEcCCCCeEEEEeeee
Confidence 345799999999999863 2222222245677766655
No 82
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A*
Probab=31.58 E-value=35 Score=22.23 Aligned_cols=35 Identities=14% Similarity=0.171 Sum_probs=23.9
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEcccc
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIE 92 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~ 92 (140)
...|...+|+|+|||. |=.+-.++ ...++...+|.
T Consensus 28 L~nG~~l~G~I~~fD~---f~vlL~~~--~~~LIYKhAIs 62 (74)
T 2ylb_A 28 LVNGIKLQGQIESFDQ---FVILLKNT--VSQMVYKHAIS 62 (74)
T ss_dssp ETTSCEEEEEEEEECS---SEEEEESS--SEEEEEGGGEE
T ss_pred EeCCCEEEEEEEEECC---cEEEEECC--ceEEEEeeeEE
Confidence 3468899999999985 44444432 56777666554
No 83
>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=31.39 E-value=1.2e+02 Score=24.16 Aligned_cols=63 Identities=6% Similarity=0.047 Sum_probs=39.1
Q ss_pred cCCceeeeEEEE----eeCCCceeEEecCCC--CCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCce
Q psy3654 54 LQNPVETGKIKE----FCRSKGHGFITPDSG--EPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQ 118 (140)
Q Consensus 54 ~~g~~~~G~VK~----f~~~KGfGFI~~~~g--~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~ 118 (140)
..|.+++|+|+. ++ ++.=||....+ +.+-++-.+++........||+|...+..-.+..+|.|
T Consensus 6 r~GeIVtG~V~r~~~~v~--~~~ViVdlG~~~~k~EgiLP~~Eqip~E~~~~GDrIkayV~~V~~~~~gpq 74 (251)
T 2asb_A 6 REGEIVAGVIQRDSRANA--RGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREPL 74 (251)
T ss_dssp CTTCEEEEEEECCHHHHH--TTCEEEEECSSSSCEEEEECGGGSCTTCCCCTTCEEEEEEEEEECCSSSCE
T ss_pred cCCCEEEEEEEEcccccc--CCeEEEEeCCCCcceEEEEcHHHcCCCccCCCCCEEEEEEEEEEcCCCCCE
Confidence 468899999999 75 34334444220 24666666665443345699999988876554333443
No 84
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}
Probab=31.04 E-value=31 Score=22.35 Aligned_cols=12 Identities=33% Similarity=0.321 Sum_probs=9.6
Q ss_pred CCceeEEecCCC
Q psy3654 69 SKGHGFITPDSG 80 (140)
Q Consensus 69 ~KGfGFI~~~~g 80 (140)
.+|||||+..+.
T Consensus 60 ~~G~afV~f~~~ 71 (105)
T 2nlw_A 60 TKGYIFLEYASP 71 (105)
T ss_dssp SCCEEEEEECSS
T ss_pred eeeEEEEEECCH
Confidence 479999998763
No 85
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Probab=30.93 E-value=96 Score=21.14 Aligned_cols=49 Identities=20% Similarity=0.287 Sum_probs=34.4
Q ss_pred CCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEE
Q psy3654 55 QNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKY 105 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F 105 (140)
+-+...|+|....++ +...|. ...|..+||.++...+...+.+|++|.-
T Consensus 35 ~~P~~Vg~v~e~~d~-~~~iVk-~s~g~~~~V~v~~~Vd~~~LkpG~rVaL 83 (109)
T 2wg5_A 35 SPPLLVGVVSDILED-GRVVVK-SSTGPKFVVNTSQYINEEELKPGARVAL 83 (109)
T ss_dssp SCCEEEEEEEEECTT-SCEEEE-ETTSCEEEECBCTTSCTTTCCTTCEEEE
T ss_pred CCCceEEEEEEEecC-CEEEEE-eCCCCEEEEEcccccCHHHCCCCCEEEE
Confidence 456788888877654 444444 4445789999988776555779999974
No 86
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Probab=30.69 E-value=23 Score=22.70 Aligned_cols=20 Identities=30% Similarity=0.390 Sum_probs=15.7
Q ss_pred eeEEEEeeCCCceeEEecCC
Q psy3654 60 TGKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 60 ~G~VK~f~~~KGfGFI~~~~ 79 (140)
.|.|+...-.+|||||+..+
T Consensus 35 ~G~i~~v~~~~~~afV~f~~ 54 (103)
T 2dgu_A 35 FGKLERVKKLKDYAFIHFDE 54 (103)
T ss_dssp HSCEEEEEECSSCEEEEESS
T ss_pred cCCEEEEEEECCEEEEEeCC
Confidence 46777777779999998876
No 87
>3i4o_A Translation initiation factor IF-1; cytoplasm, protein biosynthesis; 1.47A {Mycobacterium tuberculosis} SCOP: b.40.4.5
Probab=30.06 E-value=1.2e+02 Score=19.85 Aligned_cols=52 Identities=27% Similarity=0.242 Sum_probs=36.1
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccC-C-CcCCCCCEEEEEEEec
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEG-C-YVPLPGDEVKYRLCPI 110 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~-~-~~~l~Gd~V~F~v~~~ 110 (140)
-.+.|+|..--. .|+=.+..++| ..+-+|++---. . ..+++||.|.+++.+-
T Consensus 14 ie~~G~Vik~l~-n~~f~V~l~nG-~~~~c~i~GK~Rk~~I~Il~GD~V~ve~~~y 67 (79)
T 3i4o_A 14 IEVEGRVVEPLP-NAMFRIELENG-HKVLAHISGKMRQHYIRILPEDRVVVELSPY 67 (79)
T ss_dssp SEEEEEEEEEET-TTEEEEEETTS-CEEEEEECHHHHHTTCCCCTTCEEEEEEETT
T ss_pred EEEEEEEEEEcC-CCEEEEEeCCC-CEEEEEeCcceecCCccCCCCCEEEEEECcc
Confidence 356798888643 45555666664 578899986533 2 4578999999988653
No 88
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}
Probab=29.82 E-value=14 Score=23.63 Aligned_cols=19 Identities=32% Similarity=0.510 Sum_probs=12.4
Q ss_pred eEEEEeeCCCceeEEecCC
Q psy3654 61 GKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 61 G~VK~f~~~KGfGFI~~~~ 79 (140)
|.|....-.+|||||+..+
T Consensus 36 G~v~~v~i~~g~afV~f~~ 54 (96)
T 2kvi_A 36 GHIMQINIKNAFGFIQFDN 54 (96)
T ss_dssp CCCCEEEEETTEEEEEESC
T ss_pred CCEEEEEEeCCEEEEEECC
Confidence 3333333358999999876
No 89
>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}
Probab=28.67 E-value=26 Score=22.26 Aligned_cols=12 Identities=25% Similarity=0.553 Sum_probs=9.9
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 42 ~~rg~aFV~F~~ 53 (91)
T 2lxi_A 42 QSRGFAFVEFSH 53 (91)
T ss_dssp CCSSEEEEECSS
T ss_pred CcCceEEEEecC
Confidence 468999999876
No 90
>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A
Probab=28.62 E-value=34 Score=20.87 Aligned_cols=13 Identities=23% Similarity=0.309 Sum_probs=10.4
Q ss_pred eCCCceeEEecCC
Q psy3654 67 CRSKGHGFITPDS 79 (140)
Q Consensus 67 ~~~KGfGFI~~~~ 79 (140)
..+||||||+..+
T Consensus 50 ~~~kg~afV~f~~ 62 (87)
T 2hzc_A 50 NQDKNFAFLEFRS 62 (87)
T ss_dssp CSSSSEEEEEESS
T ss_pred cCCCcEEEEEcCC
Confidence 3569999999865
No 91
>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=28.60 E-value=48 Score=21.99 Aligned_cols=13 Identities=8% Similarity=0.248 Sum_probs=10.7
Q ss_pred eCCCceeEEecCC
Q psy3654 67 CRSKGHGFITPDS 79 (140)
Q Consensus 67 ~~~KGfGFI~~~~ 79 (140)
...||||||+..+
T Consensus 51 ~~~rGfaFVeF~~ 63 (100)
T 2d9o_A 51 SKKPGTAVVEFAT 63 (100)
T ss_dssp SSSSSEEEEEESC
T ss_pred cCCCCEEEEEECC
Confidence 3679999999866
No 92
>3nyy_A Putative glycyl-glycine endopeptidase LYTM; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE 2PE SO4; 1.60A {Ruminococcus gnavus}
Probab=28.41 E-value=61 Score=25.41 Aligned_cols=48 Identities=19% Similarity=0.221 Sum_probs=29.6
Q ss_pred eeeeEEEEeeCCCceeEEe-c--CCCCCeEEEEEccc-c-CC-CcCCCCCEEEE
Q psy3654 58 VETGKIKEFCRSKGHGFIT-P--DSGEPAVFVHISDI-E-GC-YVPLPGDEVKY 105 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~-~--~~g~~dIFfH~s~l-~-~~-~~~l~Gd~V~F 105 (140)
...|+|..-....+||... . .++..-+|.|.+.+ . .. .....||.+-+
T Consensus 145 ~~~G~V~~~g~~~~~G~~V~I~H~~G~~t~Y~HL~~~~~V~~G~~V~~Gq~IG~ 198 (252)
T 3nyy_A 145 MTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGY 198 (252)
T ss_dssp SSCEEEEEEEEETTTEEEEEEECTTSCEEEEEEESEECSCCTTCEECTTCEEEE
T ss_pred ccCEEEEEEEecCCCCCEEEEEeCCcEEEEEeeCCCCCcCCCCCEECCCCEEEE
Confidence 4558888777677888422 2 34456699999987 1 11 23446666543
No 93
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=28.07 E-value=28 Score=22.11 Aligned_cols=10 Identities=0% Similarity=0.089 Sum_probs=8.5
Q ss_pred CceeEEecCC
Q psy3654 70 KGHGFITPDS 79 (140)
Q Consensus 70 KGfGFI~~~~ 79 (140)
||||||+..+
T Consensus 52 rg~afV~f~~ 61 (96)
T 2dgx_A 52 QLKAVVQMEN 61 (96)
T ss_dssp TCCEEEEESS
T ss_pred CeEEEEEECC
Confidence 8999998765
No 94
>3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii}
Probab=26.96 E-value=1.2e+02 Score=19.78 Aligned_cols=48 Identities=17% Similarity=0.253 Sum_probs=33.2
Q ss_pred CCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEE
Q psy3654 55 QNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVK 104 (140)
Q Consensus 55 ~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~ 104 (140)
.-+...|+|..--++ +...|.... |..+|+-++...+...+.+|++|.
T Consensus 16 ~~P~~vG~v~e~~dd-~~~iVkss~-g~~~~V~v~~~Vd~~~LkpG~rVa 63 (85)
T 3h43_A 16 VPPLIVGTVVDKVGE-RKVVVKSST-GPSFLVNVSHFVNPDDLAPGKRVC 63 (85)
T ss_dssp SCCEEEEEEEEEEET-TEEEEEETT-SSEEEEEBCTTSCGGGCCTTCEEE
T ss_pred CCCceEEEEEEEcCC-CEEEEEeCC-CCeEEEEecCccCHHHCCCCCEEE
Confidence 345677877776543 455555444 478999998877654577999996
No 95
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=26.90 E-value=88 Score=20.29 Aligned_cols=37 Identities=11% Similarity=0.064 Sum_probs=22.2
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccc
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDI 91 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l 91 (140)
....|....|+|.|+|.. +=-+..++ +..+.+...+|
T Consensus 29 ~L~tGd~l~G~i~WQD~~--cl~L~~~~-~~~~LI~R~AI 65 (72)
T 3hfn_A 29 KLVTGDAITGRVLWQDPT--CVCIADEN-SRQTTIWKQAI 65 (72)
T ss_dssp EETTSCEEEEEEEEECSS--EEEEEC----CEEEEEGGGE
T ss_pred EecCCCEEEEEEEEECCC--EEEEEcCC-CCeEEEEeeee
Confidence 345799999999999863 21222222 35577766555
No 96
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}
Probab=26.69 E-value=36 Score=23.53 Aligned_cols=12 Identities=17% Similarity=0.415 Sum_probs=9.9
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 70 ~~rG~aFV~F~~ 81 (127)
T 2a3j_A 70 DNSGKAYIVFAT 81 (127)
T ss_dssp SSCCCEEEEESS
T ss_pred CcCCEEEEEECC
Confidence 568999999876
No 97
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=26.68 E-value=43 Score=23.37 Aligned_cols=36 Identities=14% Similarity=0.157 Sum_probs=25.7
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccC
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEG 93 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~ 93 (140)
...|..++|+|+|||. |-.+-.++ ...++-..+|.-
T Consensus 28 LvNG~~L~G~I~~fD~---f~VlL~~~--kqqLIYKHAIST 63 (104)
T 2y90_A 28 LVNGIKLQGQIESFDQ---FVILLKNT--VSQMVYKHAIST 63 (104)
T ss_dssp ETTSCEEEEEEEEECS---SEEEEESS--SEEEEEGGGEEE
T ss_pred EeCCCEEEEEEEEECC---cEEEEECC--ceEEEEeeeeEE
Confidence 3468899999999985 55555543 667777666654
No 98
>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA interaction, OB fold; NMR {Escherichia coli} SCOP: b.40.4.5
Probab=26.15 E-value=1.1e+02 Score=18.93 Aligned_cols=50 Identities=26% Similarity=0.232 Sum_probs=30.6
Q ss_pred eeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccC-C-CcCCCCCEEEEEEEe
Q psy3654 58 VETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEG-C-YVPLPGDEVKYRLCP 109 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~-~-~~~l~Gd~V~F~v~~ 109 (140)
++.|+|..--. .|+=.+..+++ ..+-+|++.--. . ..+++||.|.+++.+
T Consensus 7 ~~~G~Vi~~lg-~~~y~V~~~~g-~~~~~~i~Gk~Rk~~i~i~vGD~V~ve~~~ 58 (71)
T 1ah9_A 7 EMQGTVLETLP-NTMFRVELENG-HVVTAHISGKMRKNYIRILTGDKVTVELTP 58 (71)
T ss_dssp ECCEEEEEECS-SSEEEEEETTS-CEEEEEECSSGGGTTCCCCTTCEECCEECS
T ss_pred EEEEEEEEEeC-CcEEEEEECCC-CEEEEEEcceEeccCccCCCCCEEEEEEec
Confidence 35788886532 13323334453 567778765433 2 456799999999764
No 99
>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=25.93 E-value=42 Score=21.18 Aligned_cols=13 Identities=15% Similarity=0.281 Sum_probs=10.6
Q ss_pred eCCCceeEEecCC
Q psy3654 67 CRSKGHGFITPDS 79 (140)
Q Consensus 67 ~~~KGfGFI~~~~ 79 (140)
...+|||||+..+
T Consensus 46 ~~~~g~afV~f~~ 58 (97)
T 1x5p_A 46 DPPRNCAFVTYEK 58 (97)
T ss_dssp ETTTTEEEEEESS
T ss_pred cCCCCEEEEEECC
Confidence 4789999998765
No 100
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=25.53 E-value=34 Score=21.22 Aligned_cols=20 Identities=20% Similarity=0.310 Sum_probs=15.4
Q ss_pred eeEEEEeeCCCceeEEecCC
Q psy3654 60 TGKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 60 ~G~VK~f~~~KGfGFI~~~~ 79 (140)
.|.|....-.+|||||+..+
T Consensus 33 ~G~v~~~~~~~~~afV~f~~ 52 (90)
T 2dnp_A 33 RGRVIECDVVKDYAFVHMEK 52 (90)
T ss_dssp HSCEEEEEECSSCEEEEESC
T ss_pred CCCEEEEEEECCEEEEEECC
Confidence 46677766778999998876
No 101
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=25.35 E-value=43 Score=23.10 Aligned_cols=12 Identities=17% Similarity=0.110 Sum_probs=9.9
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 61 ~~rgfaFV~f~~ 72 (114)
T 2cq2_A 61 PNKPYSFARYRT 72 (114)
T ss_dssp TTCSCEEEEESS
T ss_pred CCCCEEEEEECC
Confidence 468999999865
No 102
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=25.04 E-value=36 Score=21.03 Aligned_cols=13 Identities=15% Similarity=0.232 Sum_probs=10.6
Q ss_pred CCCceeEEecCCC
Q psy3654 68 RSKGHGFITPDSG 80 (140)
Q Consensus 68 ~~KGfGFI~~~~g 80 (140)
+.||||||+..+.
T Consensus 40 ~~~g~afV~f~~~ 52 (88)
T 1wf0_A 40 PFRAFAFVTFADD 52 (88)
T ss_dssp SCCSCCEEECSCH
T ss_pred CCCCEEEEEECCH
Confidence 4689999998763
No 103
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}
Probab=24.85 E-value=37 Score=20.62 Aligned_cols=11 Identities=27% Similarity=0.552 Sum_probs=9.1
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 46 ~~g~afV~f~~ 56 (88)
T 4a8x_A 46 SKGYAYVEFEN 56 (88)
T ss_dssp ECSEEEEEESS
T ss_pred CCcEEEEEEec
Confidence 68999998765
No 104
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A
Probab=24.42 E-value=41 Score=22.11 Aligned_cols=36 Identities=17% Similarity=0.127 Sum_probs=24.3
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEcccc
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIE 92 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~ 92 (140)
...|...+|+|+|||. |-.+-..++ ...++-..+|.
T Consensus 26 L~nG~~l~G~I~~fD~---f~VlL~~~g-~~qLIYKhAIS 61 (77)
T 1kq1_A 26 FLNGFQMKGVIEEYDK---YVVSLNSQG-KQHLIYKHAIS 61 (77)
T ss_dssp ETTSCEEEEEEEEECS---SEEEEEETT-EEEEEEGGGEE
T ss_pred EeCCCEEEEEEEEECC---cEEEEEECC-eeEEEEeeeEE
Confidence 3468899999999985 655555443 45566555554
No 105
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=24.18 E-value=47 Score=21.89 Aligned_cols=13 Identities=15% Similarity=0.399 Sum_probs=10.4
Q ss_pred eCCCceeEEecCC
Q psy3654 67 CRSKGHGFITPDS 79 (140)
Q Consensus 67 ~~~KGfGFI~~~~ 79 (140)
..+||||||+..+
T Consensus 48 ~~~kg~aFVef~~ 60 (101)
T 2cq1_A 48 LKGKNQAFLELAT 60 (101)
T ss_dssp ETTTTEEEEEESS
T ss_pred ECCCCEEEEEECC
Confidence 3568999999876
No 106
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=24.07 E-value=54 Score=21.69 Aligned_cols=35 Identities=11% Similarity=0.091 Sum_probs=23.9
Q ss_pred ccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEcccc
Q psy3654 53 ALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIE 92 (140)
Q Consensus 53 ~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~ 92 (140)
...|...+|+|+|||. |-.+-. + +...++-..+|.
T Consensus 27 LvnG~~L~G~I~~fD~---f~VlL~-~-g~~qLIYKhAIS 61 (79)
T 3sb2_A 27 LVNGIKLQGHVESFDQ---YVVLLR-N-TVTQMVYKHAIS 61 (79)
T ss_dssp ETTSCEEEEEEEEECS---SEEEEE-S-SSEEEEEGGGEE
T ss_pred EeCCCEEEEEEEEECC---cEEEEE-C-CceEEEEeeeEE
Confidence 4478899999999985 665554 3 345666655554
No 107
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=23.50 E-value=33 Score=22.56 Aligned_cols=12 Identities=42% Similarity=0.415 Sum_probs=9.8
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 50 ~~rG~aFV~F~~ 61 (103)
T 1s79_A 50 AFKGSIFVVFDS 61 (103)
T ss_dssp SCCCEEEEEESS
T ss_pred CCccEEEEEECC
Confidence 468999999865
No 108
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A
Probab=23.18 E-value=33 Score=22.06 Aligned_cols=11 Identities=36% Similarity=0.486 Sum_probs=9.1
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.||||||+..+
T Consensus 53 ~kG~afV~f~~ 63 (100)
T 3ns6_A 53 TKGFLFVECGS 63 (100)
T ss_dssp ECSEEEEEESS
T ss_pred cceEEEEEECC
Confidence 47999999865
No 109
>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}
Probab=22.73 E-value=24 Score=23.88 Aligned_cols=12 Identities=25% Similarity=0.531 Sum_probs=9.5
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 65 ~~rG~aFV~f~~ 76 (131)
T 2m2b_A 65 LNRGFAFIQLST 76 (131)
T ss_dssp SBCSCEEEECCH
T ss_pred CcceEEEEEECC
Confidence 357999999865
No 110
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=22.55 E-value=63 Score=20.27 Aligned_cols=14 Identities=7% Similarity=0.230 Sum_probs=11.8
Q ss_pred eeCCCceeEEecCC
Q psy3654 66 FCRSKGHGFITPDS 79 (140)
Q Consensus 66 f~~~KGfGFI~~~~ 79 (140)
++..+|||||+..+
T Consensus 52 ~~~~~g~afV~f~~ 65 (97)
T 2e5j_A 52 WQGPRRRAFLHYPD 65 (97)
T ss_dssp EETTTTEEEEECSS
T ss_pred cCCCCcEEEEEECC
Confidence 46789999999876
No 111
>3cp3_A Uncharacterized protein; alpha-beta fold, structural genomics, PSI-2, protein structu initiative; 2.00A {Corynebacterium diphtheriae nctc 13129ORGANISM_TAXID}
Probab=22.45 E-value=1.8e+02 Score=19.79 Aligned_cols=28 Identities=18% Similarity=0.348 Sum_probs=19.9
Q ss_pred CCeEEEEEccccCC-C-cCCCCCEEEEEEEec
Q psy3654 81 EPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPI 110 (140)
Q Consensus 81 ~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~ 110 (140)
+..||||.+ .+. . .+..+..|.|.+...
T Consensus 55 ~~~lyf~ta--~~~K~~~l~~np~V~~~v~~~ 84 (148)
T 3cp3_A 55 QPRVYFRTA--EGTKLFSVNLNSDVLFEVDRF 84 (148)
T ss_dssp SCEEEEEEC----CCSSCTTSCSEEEEEEEEC
T ss_pred CCEEEEEcC--CCchHHHHhcCCcEEEEEEEC
Confidence 468999998 443 3 345788999999874
No 112
>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1
Probab=22.35 E-value=55 Score=22.34 Aligned_cols=12 Identities=33% Similarity=0.592 Sum_probs=10.4
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 60 ~~kg~aFVef~~ 71 (112)
T 1x4f_A 60 RMKSQAFIEMET 71 (112)
T ss_dssp TTTTEEEEECSS
T ss_pred cCCCEEEEEECC
Confidence 679999999876
No 113
>3fkh_A Putative pyridoxamine 5'-phosphate oxidase; NP_601736.1, STR genomics, joint center for structural genomics, JCSG; HET: P33; 2.51A {Corynebacterium glutamicum atcc 13032}
Probab=22.28 E-value=1.9e+02 Score=20.11 Aligned_cols=50 Identities=14% Similarity=0.181 Sum_probs=31.2
Q ss_pred eeeeEEEEeeCCCceeEEecCC---CCCeEEEEEccccCC-C-cCCCCCEEEEEEEecC
Q psy3654 58 VETGKIKEFCRSKGHGFITPDS---GEPAVFVHISDIEGC-Y-VPLPGDEVKYRLCPIP 111 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~~~~---g~~dIFfH~s~l~~~-~-~~l~Gd~V~F~v~~~~ 111 (140)
...|++-.-. .|+=+|.+-. .+..||||-.. +. . .+..+..|.|++...+
T Consensus 21 ~~~g~La~~~--dg~P~vvPv~f~~~~~~iyfh~a~--g~K~~~i~~~~~V~f~vd~~~ 75 (138)
T 3fkh_A 21 VSLGRVVVRR--SDEMDIFPVNFIVDKGAIYIRTAE--GNKLFSMNLNHDVLFEADEVK 75 (138)
T ss_dssp CSEEEEEEEE--TTEEEEEEEEEEEETTEEEEEEEC----------CCSEEEEEEEEEE
T ss_pred CCEEEEEEee--CCEEEEEEEEEEEECCEEEEEeCC--ChHHHHhhcCCCEEEEEEECC
Confidence 3457776553 5777776632 12579999875 33 3 3448999999998754
No 114
>1j6q_A Cytochrome C maturation protein E; all-beta protein, heme delivery,cytochrome C maturation, OB- (oligonucleotide binding)fold; NMR {Shewanella putrefaciens} SCOP: b.40.9.1 PDB: 1lm0_A
Probab=22.00 E-value=2.2e+02 Score=20.36 Aligned_cols=68 Identities=19% Similarity=0.037 Sum_probs=44.5
Q ss_pred CceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecC
Q psy3654 56 NPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVH 126 (140)
Q Consensus 56 g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~ 126 (140)
|.+..|.|++-.....+=|...|+++..|-|....+.-+ -..+|+.|--+=.-.+. +-++|.+|-.=+
T Consensus 39 G~V~~GSv~r~~~~~~v~F~vtD~~~~~v~V~Y~GilPD-lFrEGqgVVa~G~l~~~--g~F~A~eVLaKh 106 (136)
T 1j6q_A 39 GMVTVGSMVRDPNSLHVQFAVHDSLGGEILVTYDDLLPD-LFREGQGIVAQGVLGED--GKLAATEVLAKH 106 (136)
T ss_dssp EEECTTCCEECTTSSCEEEEEECTTCCCEEEEECSCCTT-SCCSSSEEEEEEEECST--TSEEEEEEECCC
T ss_pred EEEeCCcEEecCCCCEEEEEEEcCCCCEEEEEECCCCCc-cccCCCeEEEEEEECCC--CeEEEEEEEecC
Confidence 344456666654455688998885567899999888765 13477777544333322 578999986544
No 115
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Probab=21.97 E-value=24 Score=22.07 Aligned_cols=11 Identities=36% Similarity=0.513 Sum_probs=8.4
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.||||||+..+
T Consensus 44 ~kG~afV~f~~ 54 (90)
T 3p5t_L 44 SKGFALVGVGS 54 (90)
T ss_dssp EEEEEEECC-C
T ss_pred cCcEEEEEECC
Confidence 47999999866
No 116
>3slu_A M23 peptidase domain protein; outer membrane, hydrolase; 2.41A {Neisseria meningitidis}
Probab=21.88 E-value=76 Score=26.31 Aligned_cols=48 Identities=19% Similarity=0.234 Sum_probs=31.8
Q ss_pred eeeeEEEEeeCCCceeEEe-c--CCCCCeEEEEEccccCC-CcCCCCCEEEE
Q psy3654 58 VETGKIKEFCRSKGHGFIT-P--DSGEPAVFVHISDIEGC-YVPLPGDEVKY 105 (140)
Q Consensus 58 ~~~G~VK~f~~~KGfGFI~-~--~~g~~dIFfH~s~l~~~-~~~l~Gd~V~F 105 (140)
...|+|..-....|||-.. . .++..-+|.|.+.+... .....||.+-+
T Consensus 262 ~~~G~V~~~~~~~g~G~~V~I~H~~g~~t~Y~HL~~~v~~G~~V~~Gq~IG~ 313 (371)
T 3slu_A 262 SADGVITFKGRKGGYGNAVMIRHANGVETLYAHLSAFSQAQGNVRGGEVIGF 313 (371)
T ss_dssp SSSSBEEEEEECGGGCEEEEEECSTTEEEEEEEESBCCCCCSBCCSSSEEEE
T ss_pred cCCeEEEEEEecCCCccEEEEEECCcEEEEEecCcccCCCcCEECCCCEEEE
Confidence 3458888877788998433 2 33445699999988543 34557777644
No 117
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1
Probab=21.80 E-value=43 Score=21.14 Aligned_cols=13 Identities=15% Similarity=0.414 Sum_probs=10.7
Q ss_pred eCCCceeEEecCC
Q psy3654 67 CRSKGHGFITPDS 79 (140)
Q Consensus 67 ~~~KGfGFI~~~~ 79 (140)
...+|||||+..+
T Consensus 55 g~~~g~afV~f~~ 67 (101)
T 1fj7_A 55 GTNRKFGYVDFES 67 (101)
T ss_dssp ETTTTEEEEEESS
T ss_pred CCcCcEEEEEECC
Confidence 4678999999876
No 118
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1
Probab=21.78 E-value=60 Score=20.41 Aligned_cols=14 Identities=36% Similarity=0.712 Sum_probs=11.0
Q ss_pred eCCCceeEEecCCC
Q psy3654 67 CRSKGHGFITPDSG 80 (140)
Q Consensus 67 ~~~KGfGFI~~~~g 80 (140)
...||||||+..+.
T Consensus 48 ~~~kg~afV~f~~~ 61 (99)
T 2cpj_A 48 HKDKGFGFIRLETR 61 (99)
T ss_dssp ETTTTEEEEECSSS
T ss_pred ecCCCEEEEEECCH
Confidence 35689999998763
No 119
>3our_B EIIA, phosphotransferase system IIA component; exhibit no hydrolase activity1, lyase-transferase complex; 2.20A {Vibrio vulnificus} SCOP: b.84.3.1
Probab=21.75 E-value=95 Score=23.58 Aligned_cols=43 Identities=21% Similarity=0.443 Sum_probs=25.7
Q ss_pred eeeEEEEeeCC-CceeEEecCCCCCeEEEEE--c--cccCC-CcC--CCCCEE
Q psy3654 59 ETGKIKEFCRS-KGHGFITPDSGEPAVFVHI--S--DIEGC-YVP--LPGDEV 103 (140)
Q Consensus 59 ~~G~VK~f~~~-KGfGFI~~~~g~~dIFfH~--s--~l~~~-~~~--l~Gd~V 103 (140)
..|+|....+. --||+.. ++ |-+|.+|+ . +|.++ +.. .+||.|
T Consensus 78 ~dG~V~~vfpT~HAigi~s-~~-G~EvLIHIGiDTV~L~G~gF~~~V~~Gd~V 128 (183)
T 3our_B 78 VNGTIGKIFETNHAFSIES-DD-GVELFVHFGIDTVELKGEGFTRIAEEGQTV 128 (183)
T ss_dssp SSEEEEEECTTSSEEEEEE-TT-SCEEEEECSBSGGGGTTTTEEECSCTTCEE
T ss_pred CCeEEEEECCCCCEEEEEe-CC-CCEEEEEecccccccCCccceEEEeCcCEE
Confidence 45988877653 3345433 33 57899996 3 34555 433 377765
No 120
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=21.63 E-value=44 Score=20.30 Aligned_cols=11 Identities=55% Similarity=0.833 Sum_probs=8.9
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 46 ~~g~afV~f~~ 56 (85)
T 1x4e_A 46 CKGYGFVDFDS 56 (85)
T ss_dssp CCSEEEEEESC
T ss_pred cCcEEEEEECC
Confidence 38999998865
No 121
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...
Probab=21.54 E-value=53 Score=20.42 Aligned_cols=11 Identities=18% Similarity=0.486 Sum_probs=8.7
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 50 ~~g~afV~f~~ 60 (97)
T 1nu4_A 50 MRGQAFVIFKE 60 (97)
T ss_dssp HTTCEEEEESS
T ss_pred cCcEEEEEeCC
Confidence 47999998765
No 122
>1uwv_A 23S rRNA (uracil-5-)-methyltransferase RUMA; RNA modification, iron-sulfur cluster, RNA processing; 1.95A {Escherichia coli} SCOP: b.40.4.12 c.66.1.40 PDB: 2bh2_A*
Probab=21.18 E-value=3.4e+02 Score=22.10 Aligned_cols=61 Identities=20% Similarity=0.306 Sum_probs=44.7
Q ss_pred ceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCCCcCCCCCEEEEEEEecCCCCCCceEEEEEecCCCCc
Q psy3654 57 PVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGCYVPLPGDEVKYRLCPIPPKFEKNQAVHVEIVHLTPE 130 (140)
Q Consensus 57 ~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~~~~l~Gd~V~F~v~~~~k~~~g~~A~~V~~~~~~p~ 130 (140)
.++..+|..+. ..|.|.-..++ .-||| .+ .++||+|+.++....+ +-..|.-++++..+|.
T Consensus 15 ~~~~~~i~~l~-~~G~Gv~~~~g--~~vfV-----~~---alpGe~v~~~i~~~~~--~~~~~~~~~i~~~S~~ 75 (433)
T 1uwv_A 15 QIITVSVNDLD-SFGQGVARHNG--KTLFI-----PG---LLPQENAEVTVTEDKK--QYARAKVVRRLSDSPE 75 (433)
T ss_dssp CCEEEEEEEEC-TTSEEEEEETT--EEEEE-----ET---CCTTCEEEEEEEEECS--SEEEEEEEEECCCCTT
T ss_pred CEEEEEEEEec-CCCceEEEeCC--EEEEc-----CC---CCCCCEEEEEEEeecC--CceeEEeccccCCCCC
Confidence 45678898885 67999888653 34664 12 5699999999998654 4556888888887765
No 123
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3
Probab=21.04 E-value=38 Score=22.32 Aligned_cols=11 Identities=9% Similarity=0.144 Sum_probs=8.7
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 67 ~~G~~fV~f~~ 77 (104)
T 1jmt_A 67 LVGNVYVKFRR 77 (104)
T ss_dssp SEEEEEEEESC
T ss_pred ccEEEEEEECC
Confidence 38999998765
No 124
>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A
Probab=20.58 E-value=42 Score=19.81 Aligned_cols=13 Identities=31% Similarity=0.496 Sum_probs=10.1
Q ss_pred CCCceeEEecCCC
Q psy3654 68 RSKGHGFITPDSG 80 (140)
Q Consensus 68 ~~KGfGFI~~~~g 80 (140)
..+|||||+..+.
T Consensus 39 ~~~g~afV~f~~~ 51 (75)
T 1iqt_A 39 KRRGFCFITFKEE 51 (75)
T ss_dssp SSCCCEEEECSSS
T ss_pred CcCCEEEEEECCH
Confidence 3589999998763
No 125
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1
Probab=20.51 E-value=44 Score=22.25 Aligned_cols=21 Identities=19% Similarity=0.238 Sum_probs=13.4
Q ss_pred eeeEEEEee--CCCceeEEecCC
Q psy3654 59 ETGKIKEFC--RSKGHGFITPDS 79 (140)
Q Consensus 59 ~~G~VK~f~--~~KGfGFI~~~~ 79 (140)
..|.|+... .+||||||+..+
T Consensus 39 ~fG~V~~v~i~~~kg~aFVef~~ 61 (102)
T 1x4d_A 39 PFGVISNHLILNKINEAFIEMAT 61 (102)
T ss_dssp GGSCEEEEEECSSSSCEEEEESS
T ss_pred hcCCEEEEEEEcCCCEEEEEECC
Confidence 335544332 467999999876
No 126
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Probab=20.44 E-value=45 Score=19.75 Aligned_cols=11 Identities=45% Similarity=0.887 Sum_probs=9.2
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.+|||||+..+
T Consensus 40 ~~g~afV~f~~ 50 (75)
T 2mss_A 40 HRGFGFVTFES 50 (75)
T ss_dssp SCBEEEEECSC
T ss_pred cCcEEEEEECC
Confidence 47999999876
No 127
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=20.42 E-value=43 Score=21.97 Aligned_cols=12 Identities=25% Similarity=0.373 Sum_probs=9.9
Q ss_pred CCCceeEEecCC
Q psy3654 68 RSKGHGFITPDS 79 (140)
Q Consensus 68 ~~KGfGFI~~~~ 79 (140)
..||||||+..+
T Consensus 50 ~~~G~aFV~f~~ 61 (114)
T 2dnl_A 50 PPKGYAFLLFQE 61 (114)
T ss_dssp CTTSEEEECCSS
T ss_pred CcccEEEEEECC
Confidence 458999999876
No 128
>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=20.39 E-value=2.2e+02 Score=21.48 Aligned_cols=57 Identities=11% Similarity=0.087 Sum_probs=39.0
Q ss_pred cccCCceeeeEEEEeeCCCceeEEecCCCCCeEEEEEccccCC--Cc----------------CCCCCEEEEEEEecC
Q psy3654 52 RALQNPVETGKIKEFCRSKGHGFITPDSGEPAVFVHISDIEGC--YV----------------PLPGDEVKYRLCPIP 111 (140)
Q Consensus 52 ~~~~g~~~~G~VK~f~~~KGfGFI~~~~g~~dIFfH~s~l~~~--~~----------------~l~Gd~V~F~v~~~~ 111 (140)
+...|+++.|+|+.-+. .|.|++.. + -=++|+....|..+ +. ...|+.|.|++..-.
T Consensus 126 rPf~GevL~G~V~~~s~-~~Ig~~~~-G-~Fn~~Ip~~~ip~~~~f~~~~~~~~~~~wv~~~~~~ig~~IRFrV~~~~ 200 (214)
T 2rf4_A 126 QPQVGDVLEGYIFIQSA-SHIGLLIH-D-AFNASIKKNNIPVDWTFVHNDGNRSLGHWVDSNGEPIDGKLRFTVRNVH 200 (214)
T ss_dssp CCCTTCEEEEEECCCCS-SCEEEEET-T-TEEEEECSTTSCSSCBCCCCSCC-CCCCCBCSSCCBCCSEEEEEEEEEE
T ss_pred ecCCCCEEEEEEEEECC-CcEEEEEe-C-CEEEEEcHHHCCCcccccccccccCCCceEcCCCCCCCCEEEEEEEEEE
Confidence 34578999999998764 58998753 2 23578888777533 11 114889999987654
No 129
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.23 E-value=55 Score=20.63 Aligned_cols=20 Identities=40% Similarity=0.250 Sum_probs=13.2
Q ss_pred eeEEEEeeC----CCceeEEecCC
Q psy3654 60 TGKIKEFCR----SKGHGFITPDS 79 (140)
Q Consensus 60 ~G~VK~f~~----~KGfGFI~~~~ 79 (140)
.|.|+.... .+|||||+..+
T Consensus 39 ~g~v~~~~~~~g~~~g~afV~f~~ 62 (101)
T 2fc9_A 39 ATFIKVPQNQNGKSKGYAFIEFAS 62 (101)
T ss_dssp CSEEECCBCSSSCBCSEEEEECSS
T ss_pred CCEEEEEECCCCCEeeEEEEEECC
Confidence 366644432 47999998876
No 130
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A
Probab=20.20 E-value=30 Score=22.87 Aligned_cols=11 Identities=45% Similarity=0.806 Sum_probs=9.1
Q ss_pred CCceeEEecCC
Q psy3654 69 SKGHGFITPDS 79 (140)
Q Consensus 69 ~KGfGFI~~~~ 79 (140)
.||||||+..+
T Consensus 44 ~kg~afV~f~~ 54 (115)
T 4f25_A 44 SKGYGFVHFET 54 (115)
T ss_dssp EEEEEEEEESC
T ss_pred CCceEEEEECC
Confidence 37899999876
No 131
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.05 E-value=33 Score=21.40 Aligned_cols=19 Identities=21% Similarity=0.259 Sum_probs=13.6
Q ss_pred eEEEEeeCCCceeEEecCC
Q psy3654 61 GKIKEFCRSKGHGFITPDS 79 (140)
Q Consensus 61 G~VK~f~~~KGfGFI~~~~ 79 (140)
|.|+...-.++||||+..+
T Consensus 35 G~v~~v~~~~~~afV~f~~ 53 (92)
T 2dgt_A 35 GPVIECDIVKDYAFVHMER 53 (92)
T ss_dssp SCCCEEEECSSEEEEEESC
T ss_pred CCeEEEEEECCEEEEEECC
Confidence 5555555568899998876
Done!