Query 020522
Match_columns 325
No_of_seqs 197 out of 1274
Neff 8.8
Searched_HMMs 29240
Date Mon Mar 25 04:14:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020522.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020522hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2li8_A Protein LIN-28 homolog 81.4 0.87 3E-05 31.4 2.4 32 293-324 19-57 (74)
2 2ezd_A High mobility group pro 80.6 1.1 3.8E-05 23.5 2.0 17 281-297 2-18 (26)
3 1wii_A Hypothetical UPF0222 pr 72.4 6.8 0.00023 27.6 5.0 29 294-322 19-56 (85)
4 2a51_A Nucleocapsid protein; s 68.8 1.3 4.4E-05 26.2 0.5 12 300-311 23-34 (39)
5 3lcz_A YCZA, inhibitor of trap 67.9 2 6.7E-05 27.5 1.2 25 299-324 10-34 (53)
6 3j20_Y 30S ribosomal protein S 63.9 3.4 0.00012 26.0 1.8 26 298-324 19-48 (50)
7 1wff_A Riken cDNA 2810002D23 p 62.9 7.4 0.00025 27.3 3.5 41 275-321 7-47 (85)
8 2bl6_A Nucleocapsid protein P1 62.4 2 6.9E-05 24.9 0.5 12 300-311 21-32 (37)
9 3hot_A Transposable element ma 61.7 82 0.0028 27.4 11.6 51 3-56 193-252 (345)
10 2ec7_A GAG polyprotein (PR55GA 61.2 2.9 9.9E-05 26.0 1.1 25 299-323 7-37 (49)
11 1x4s_A Protein FON, zinc finge 57.5 7.9 0.00027 25.2 2.7 24 298-321 11-34 (59)
12 2ihx_A Nucleocapsid (NC) prote 56.0 4.7 0.00016 26.3 1.5 13 299-311 31-43 (61)
13 1dl6_A Transcription factor II 55.9 6.3 0.00021 25.5 2.0 30 292-321 5-38 (58)
14 3ts2_A Protein LIN-28 homolog 55.0 6.4 0.00022 30.8 2.3 27 298-324 97-130 (148)
15 2l0z_A Glycoprotein G2; zinc-b 54.9 5.6 0.00019 23.6 1.5 15 211-225 21-35 (42)
16 1u6p_A GAG polyprotein; MLV, A 53.3 9.7 0.00033 24.5 2.6 21 291-311 16-36 (56)
17 1a1t_A Nucleocapsid protein; s 51.3 5.7 0.00019 25.2 1.2 25 299-323 13-43 (55)
18 2xzm_5 Ribosomal protein S26E 48.3 9.5 0.00032 28.4 2.2 26 281-306 2-28 (119)
19 2bx9_A Anti-trap, AT, tryptoph 47.6 7 0.00024 24.8 1.2 25 299-324 10-34 (53)
20 3u5c_a 40S ribosomal protein S 46.0 11 0.00036 28.2 2.1 26 281-306 2-28 (119)
21 1vq8_1 50S ribosomal protein L 44.9 5.1 0.00018 25.7 0.3 26 296-321 15-40 (57)
22 1wg2_A Zinc finger (AN1-like) 44.9 12 0.0004 24.8 2.0 21 298-321 15-36 (64)
23 1wfl_A Zinc finger protein 216 43.6 36 0.0012 23.1 4.3 20 299-321 26-46 (74)
24 2cqf_A RNA-binding protein LIN 41.9 9.7 0.00033 25.0 1.3 12 300-311 31-42 (63)
25 1cl4_A Protein (GAG polyprotei 41.5 7.6 0.00026 25.1 0.7 14 298-311 30-43 (60)
26 3j21_e 50S ribosomal protein L 39.7 11 0.00038 24.6 1.2 25 297-321 16-40 (62)
27 2yqq_A Zinc finger HIT domain- 38.5 10 0.00035 24.4 0.9 19 299-321 13-31 (56)
28 2zjr_Z 50S ribosomal protein L 38.1 6.3 0.00021 25.8 -0.2 39 280-320 6-50 (60)
29 2bw3_A Transposase; DNA recomb 36.6 67 0.0023 30.1 6.8 69 13-85 131-201 (534)
30 2ysa_A Retinoblastoma-binding 35.1 14 0.00049 23.5 1.2 24 297-322 6-29 (55)
31 1nc8_A Nucleocapsid protein; H 33.4 18 0.00061 19.5 1.3 15 298-312 6-20 (29)
32 1a6b_B Momulv, zinc finger pro 32.9 22 0.00075 21.0 1.7 16 297-312 9-24 (40)
33 3f2k_A Histone-lysine N-methyl 32.3 1.3E+02 0.0046 24.6 7.3 52 2-56 74-133 (226)
34 1pft_A TFIIB, PFTFIIBN; N-term 31.5 18 0.0006 22.3 1.2 24 298-321 5-32 (50)
35 2zkr_2 60S ribosomal protein L 31.3 17 0.00059 26.0 1.2 28 296-323 14-41 (97)
36 1exk_A DNAJ protein; extended 30.5 16 0.00056 24.7 1.0 24 299-322 29-59 (79)
37 2fcj_A Small toprim domain pro 29.7 55 0.0019 24.4 3.9 42 33-77 41-85 (119)
38 3f9k_A Integrase; protein-prot 29.7 2.1E+02 0.0072 22.7 9.7 48 3-57 74-121 (210)
39 1x4w_A Hypothetical protein FL 29.6 13 0.00043 24.9 0.2 23 299-322 16-40 (67)
40 1wfh_A Zinc finger (AN1-like) 28.8 23 0.00077 23.4 1.4 20 299-321 16-36 (64)
41 2apo_B Ribosome biogenesis pro 27.2 17 0.00058 23.7 0.5 22 298-322 6-27 (60)
42 2ctt_A DNAJ homolog subfamily 26.0 30 0.001 24.9 1.8 12 299-310 46-57 (104)
43 4ayb_P DNA-directed RNA polyme 24.6 19 0.00065 22.1 0.4 7 300-306 5-11 (48)
44 1dsq_A Nucleic acid binding pr 24.5 26 0.0009 18.3 0.9 14 299-312 3-16 (26)
45 2i5o_A DNA polymerase ETA; zin 24.3 28 0.00097 20.4 1.1 10 312-321 8-17 (39)
46 3a43_A HYPD, hydrogenase nicke 23.2 14 0.00049 28.4 -0.5 8 299-306 108-115 (139)
47 4a18_A RPL37, ribosomal protei 22.9 20 0.0007 25.3 0.3 27 295-321 13-39 (94)
48 1gh9_A 8.3 kDa protein (gene M 22.7 35 0.0012 23.0 1.5 20 300-321 6-28 (71)
49 3iz5_l 60S ribosomal protein L 22.3 21 0.00071 25.3 0.2 27 295-321 13-39 (94)
50 1nlt_A Protein YDJ1, mitochond 22.0 21 0.00073 30.3 0.3 26 298-323 80-106 (248)
51 2k4x_A 30S ribosomal protein S 21.9 44 0.0015 21.2 1.7 26 298-324 18-47 (55)
52 1twf_L ABC10-alpha, DNA-direct 21.4 19 0.00066 24.2 -0.1 25 297-321 27-53 (70)
53 1tfi_A Transcriptional elongat 20.8 95 0.0032 19.1 3.1 24 298-321 9-45 (50)
54 1wfp_A Zinc finger (AN1-like) 20.2 52 0.0018 22.3 1.9 20 299-321 26-46 (74)
55 3u5c_b RP61, YS20, 40S ribosom 20.0 13 0.00044 25.8 -1.2 24 298-321 34-61 (82)
No 1
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=81.42 E-value=0.87 Score=31.35 Aligned_cols=32 Identities=9% Similarity=-0.001 Sum_probs=22.6
Q ss_pred cccCCCccCCCccccceeee-------EEeecCCCCCCC
Q 020522 293 KAKNSELCCSKVKQVSVVMS-------LYLIQPCGLSEY 324 (325)
Q Consensus 293 ~R~~~~~~c~~c~~~gh~~~-------~~~~~~~~~~~~ 324 (325)
+|......|-+|.+.||+.+ ...|-.||+++-
T Consensus 19 ~~~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH 57 (74)
T 2li8_A 19 KRRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISH 57 (74)
T ss_dssp SCCSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTS
T ss_pred cccCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCC
Confidence 33344567999999999874 356778887763
No 2
>2ezd_A High mobility group protein HMG-I/HMG-Y; DNA binding protein, minor groove DNA binding, transcriptional CO-activator, architectural factor; HET: DNA; NMR {Homo sapiens} SCOP: j.10.1.1 PDB: 2eze_A*
Probab=80.58 E-value=1.1 Score=23.51 Aligned_cols=17 Identities=6% Similarity=0.042 Sum_probs=12.5
Q ss_pred CCCCCCCCCCcccccCC
Q 020522 281 PQNANTPDLTIHKAKNS 297 (325)
Q Consensus 281 P~~~r~~GRPk~~R~~~ 297 (325)
|.-+|++||||-+.-++
T Consensus 2 ptpKrpRgRpkGSKNk~ 18 (26)
T 2ezd_A 2 PTPKRPRGRPKGSKNKG 18 (26)
T ss_dssp CSCCCCSSCCTTCCCCS
T ss_pred CCCcCCCCCcCcccccC
Confidence 55589999999666544
No 3
>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4
Probab=72.44 E-value=6.8 Score=27.59 Aligned_cols=29 Identities=10% Similarity=0.171 Sum_probs=21.6
Q ss_pred ccCCCccCCCcccc-ceee--------eEEeecCCCCC
Q 020522 294 AKNSELCCSKVKQV-SVVM--------SLYLIQPCGLS 322 (325)
Q Consensus 294 R~~~~~~c~~c~~~-gh~~--------~~~~~~~~~~~ 322 (325)
.++....|+.|+.. ++.. ....|.-||++
T Consensus 19 ~L~t~F~CPfCnh~~sV~vkidk~~~~g~l~C~~Cg~~ 56 (85)
T 1wii_A 19 TLETQFTCPFCNHEKSCDVKMDRARNTGVISCTVCLEE 56 (85)
T ss_dssp CCSSCCCCTTTCCSSCEEEEEETTTTEEEEEESSSCCE
T ss_pred CCCCeEcCCCCCCCCeEEEEEEccCCEEEEEcccCCCe
Confidence 45668999999988 3332 66789999974
No 4
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=68.82 E-value=1.3 Score=26.17 Aligned_cols=12 Identities=8% Similarity=0.063 Sum_probs=7.1
Q ss_pred cCCCccccceee
Q 020522 300 CCSKVKQVSVVM 311 (325)
Q Consensus 300 ~c~~c~~~gh~~ 311 (325)
.|-+|++.||..
T Consensus 23 ~C~~Cg~~GH~~ 34 (39)
T 2a51_A 23 GCWNCGSKEHRF 34 (39)
T ss_dssp SCTTTCCSSSCT
T ss_pred ccccCCCCCCcc
Confidence 466666666653
No 5
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A
Probab=67.88 E-value=2 Score=27.46 Aligned_cols=25 Identities=8% Similarity=-0.016 Sum_probs=20.2
Q ss_pred ccCCCccccceeeeEEeecCCCCCCC
Q 020522 299 LCCSKVKQVSVVMSLYLIQPCGLSEY 324 (325)
Q Consensus 299 ~~c~~c~~~gh~~~~~~~~~~~~~~~ 324 (325)
..|+.|++.|.+.. ..|+.|+-.++
T Consensus 10 ~~C~~C~GsG~~i~-~~C~~C~G~G~ 34 (53)
T 3lcz_A 10 TTCPNCNGSGREEP-EPCPKCLGKGV 34 (53)
T ss_dssp EECTTTTTSCEETT-EECTTTTTSSE
T ss_pred ccCcCCcccccCCC-CcCCCCCCcEE
Confidence 57999999998876 77999987654
No 6
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=63.89 E-value=3.4 Score=25.96 Aligned_cols=26 Identities=23% Similarity=0.589 Sum_probs=19.1
Q ss_pred CccCCCccccceeee----EEeecCCCCCCC
Q 020522 298 ELCCSKVKQVSVVMS----LYLIQPCGLSEY 324 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~----~~~~~~~~~~~~ 324 (325)
..-|++|+. |+... -+.|+.||...|
T Consensus 19 ~k~CP~CG~-~~fm~~~~~R~~C~kCG~t~~ 48 (50)
T 3j20_Y 19 NKFCPRCGP-GVFMADHGDRWACGKCGYTEW 48 (50)
T ss_dssp SEECSSSCS-SCEEEECSSEEECSSSCCEEE
T ss_pred cccCCCCCC-ceEEecCCCeEECCCCCCEEE
Confidence 346999975 55554 668999998876
No 7
>1wff_A Riken cDNA 2810002D23 protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1
Probab=62.86 E-value=7.4 Score=27.31 Aligned_cols=41 Identities=20% Similarity=0.219 Sum_probs=23.2
Q ss_pred CCcccCCCCCCCCCCCcccccCCCccCCCccccceeeeEEeecCCCC
Q 020522 275 FESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 275 ~~~~~PP~~~r~~GRPk~~R~~~~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
+..++||... +.+.+ .....+|+.|++.=-...-|.|+ ||.
T Consensus 7 ~~~~lp~~~~-~~~~~----k~~~~rC~~C~kkvgl~~~f~Cr-Cg~ 47 (85)
T 1wff_A 7 GIHHLPPVKA-PLQTK----KKIMKHCFLCGKKTGLATSFECR-CGN 47 (85)
T ss_dssp CCCCCCCCCC-CCCCC----CCCCCBCSSSCCBCSSSSCEECT-TCC
T ss_pred CceEccceec-ccccC----cccCccchhhCCeecccCCeEcC-CCC
Confidence 4467777655 22222 22245799998742121369995 986
No 8
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=62.45 E-value=2 Score=24.95 Aligned_cols=12 Identities=33% Similarity=0.365 Sum_probs=6.4
Q ss_pred cCCCccccceee
Q 020522 300 CCSKVKQVSVVM 311 (325)
Q Consensus 300 ~c~~c~~~gh~~ 311 (325)
.|-+|++.||+.
T Consensus 21 ~C~~Cg~~GH~a 32 (37)
T 2bl6_A 21 VCFKCKQPGHFS 32 (37)
T ss_dssp TCSSCCCTTGGG
T ss_pred eEccCCCcCCcc
Confidence 455555555543
No 9
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=61.68 E-value=82 Score=27.45 Aligned_cols=51 Identities=14% Similarity=0.165 Sum_probs=32.2
Q ss_pred EEEEEcCCCCeEEEEEEEee---ccccchHHHHHHHHhhhcccC------CCCCeEEEeCCch
Q 020522 3 TAVGIDANDGIWPVAVYEVE---EESNSTWYNFLLKLGEMLRVD------NGEGFCFISDGEN 56 (325)
Q Consensus 3 ~a~g~D~~~~~~~la~aiv~---~E~~~~w~wfl~~l~~~lg~~------~~~~~~iisD~~~ 56 (325)
+..+.|.+| .+++.+++ .-|.+.|.-||+.+...+... ++.+++|+.|...
T Consensus 193 v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~ 252 (345)
T 3hot_A 193 LCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAP 252 (345)
T ss_dssp EEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCT
T ss_pred EEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCC
Confidence 445556665 56667766 567888888888765443111 0247899999854
No 10
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=61.21 E-value=2.9 Score=26.02 Aligned_cols=25 Identities=12% Similarity=0.117 Sum_probs=14.1
Q ss_pred ccCCCccccceeee------EEeecCCCCCC
Q 020522 299 LCCSKVKQVSVVMS------LYLIQPCGLSE 323 (325)
Q Consensus 299 ~~c~~c~~~gh~~~------~~~~~~~~~~~ 323 (325)
..|-+|.+.||+.+ ...|-.||+.+
T Consensus 7 ~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~G 37 (49)
T 2ec7_A 7 IRCWNCGKEGHSARQCRAPRRQGCWKCGKTG 37 (49)
T ss_dssp CBCTTTCCBTCCTTTCCCSSCCSCSSSCCSS
T ss_pred CeeeecCCCCcChhhCcCCCCCeeCcCCCcC
Confidence 35666666666653 12455666554
No 11
>1x4s_A Protein FON, zinc finger HIT domain containing protein 2; structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.2
Probab=57.55 E-value=7.9 Score=25.17 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=19.3
Q ss_pred CccCCCccccceeeeEEeecCCCC
Q 020522 298 ELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
...|..|+..-...+.|+|++|+.
T Consensus 11 ~~~C~vC~~~~~~~akY~CPrC~~ 34 (59)
T 1x4s_A 11 AGPCGFCPAGEVQPARYTCPRCNA 34 (59)
T ss_dssp CEEECSSCTTCCEEECEECTTTCC
T ss_pred CCcCcCCCCCcCCCccccCcCCCC
Confidence 347999986556789999999984
No 12
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=56.04 E-value=4.7 Score=26.33 Aligned_cols=13 Identities=8% Similarity=0.041 Sum_probs=8.1
Q ss_pred ccCCCccccceee
Q 020522 299 LCCSKVKQVSVVM 311 (325)
Q Consensus 299 ~~c~~c~~~gh~~ 311 (325)
..|-+|.+.||+.
T Consensus 31 ~~C~~Cg~~GH~a 43 (61)
T 2ihx_A 31 ERCQLCNGMGHNA 43 (61)
T ss_dssp SBCTTTCCBSSCG
T ss_pred CeeCCCCCCCCCc
Confidence 4566666666654
No 13
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=55.95 E-value=6.3 Score=25.52 Aligned_cols=30 Identities=13% Similarity=0.268 Sum_probs=20.3
Q ss_pred ccccCCCccCCCcccc----ceeeeEEeecCCCC
Q 020522 292 HKAKNSELCCSKVKQV----SVVMSLYLIQPCGL 321 (325)
Q Consensus 292 ~~R~~~~~~c~~c~~~----gh~~~~~~~~~~~~ 321 (325)
+++......|+.|+.. .+..+..-|..||.
T Consensus 5 ~~~ll~~~~Cp~C~~~~lv~D~~~ge~vC~~CGl 38 (58)
T 1dl6_A 5 RLDALPRVTCPNHPDAILVEDYRAGDMICPECGL 38 (58)
T ss_dssp SCCCCSCCSBTTBSSSCCEECSSSCCEECTTTCC
T ss_pred hhhccccccCcCCCCCceeEeCCCCeEEeCCCCC
Confidence 3344445689999873 33446788999985
No 14
>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=54.97 E-value=6.4 Score=30.84 Aligned_cols=27 Identities=7% Similarity=-0.070 Sum_probs=20.8
Q ss_pred CccCCCccccceeee-------EEeecCCCCCCC
Q 020522 298 ELCCSKVKQVSVVMS-------LYLIQPCGLSEY 324 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~-------~~~~~~~~~~~~ 324 (325)
..+|-+|.+.||+.+ --.|-+||+.+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH 130 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINH 130 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSC
T ss_pred CCcccEeCCccchhhhCCCCCCCCcccccCCcCC
Confidence 567999999999852 357888988764
No 15
>2l0z_A Glycoprotein G2; zinc-binding domain, virus envelope glycoprotein, GPC, junin arenavirus, viral protein; NMR {Junin virus}
Probab=54.88 E-value=5.6 Score=23.57 Aligned_cols=15 Identities=27% Similarity=0.612 Sum_probs=13.2
Q ss_pred CccccccccccCCCC
Q 020522 211 KQCCDCGSWQLSGIP 225 (325)
Q Consensus 211 ~~~CsC~~~~~~giP 225 (325)
...|+|+.|...|.|
T Consensus 21 ~~~C~CG~y~~~~kp 35 (42)
T 2l0z_A 21 LGGCRCGKYPNLKKP 35 (42)
T ss_dssp TSSBTTTTBCCCCCC
T ss_pred CceeccccccCCCCc
Confidence 468999999999887
No 16
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=53.27 E-value=9.7 Score=24.47 Aligned_cols=21 Identities=10% Similarity=0.063 Sum_probs=16.1
Q ss_pred cccccCCCccCCCccccceee
Q 020522 291 IHKAKNSELCCSKVKQVSVVM 311 (325)
Q Consensus 291 k~~R~~~~~~c~~c~~~gh~~ 311 (325)
...+..+..+|-.|++.||..
T Consensus 16 ~~~~~~~~~~C~~Cge~GH~a 36 (56)
T 1u6p_A 16 RRRSQLDRDQCAYCKEKGHWA 36 (56)
T ss_dssp CCSTTCCTTBCSSSCCBSSCG
T ss_pred cCCCCCCCCcceeCCCCCccc
Confidence 334455578999999999986
No 17
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=51.26 E-value=5.7 Score=25.21 Aligned_cols=25 Identities=12% Similarity=0.139 Sum_probs=15.9
Q ss_pred ccCCCccccceeee------EEeecCCCCCC
Q 020522 299 LCCSKVKQVSVVMS------LYLIQPCGLSE 323 (325)
Q Consensus 299 ~~c~~c~~~gh~~~------~~~~~~~~~~~ 323 (325)
..|-+|.+.||+.+ .-.|-.||.++
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~G 43 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAPRKKGCWKCGKEG 43 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSCSCCBCTTTCCBS
T ss_pred cceeeeCCCCcChhhcCCCCCCEeCCCCCcC
Confidence 45777777777653 24566676655
No 18
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=48.32 E-value=9.5 Score=28.41 Aligned_cols=26 Identities=8% Similarity=0.259 Sum_probs=18.6
Q ss_pred CCCCCCCCCCcccccCC-CccCCCccc
Q 020522 281 PQNANTPDLTIHKAKNS-ELCCSKVKQ 306 (325)
Q Consensus 281 P~~~r~~GRPk~~R~~~-~~~c~~c~~ 306 (325)
|..+|..||-|+-|... ..+|.+|.+
T Consensus 2 ~kKRrN~GR~KkgrGhv~~V~C~nCgr 28 (119)
T 2xzm_5 2 PVKRRNAGRSQKNRGHTRTVPCTNCGR 28 (119)
T ss_dssp CCCCSSTTCCCCSSSCCCEEECTTTCC
T ss_pred CcccccCCCCCCCCCCCccEeeCCccc
Confidence 56677888888877665 457777764
No 19
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C*
Probab=47.58 E-value=7 Score=24.80 Aligned_cols=25 Identities=12% Similarity=0.278 Sum_probs=18.7
Q ss_pred ccCCCccccceeeeEEeecCCCCCCC
Q 020522 299 LCCSKVKQVSVVMSLYLIQPCGLSEY 324 (325)
Q Consensus 299 ~~c~~c~~~gh~~~~~~~~~~~~~~~ 324 (325)
..|+.|++.|.+.. -.|+.|+-.++
T Consensus 10 ~~C~~C~GsG~~~~-~~C~~C~G~G~ 34 (53)
T 2bx9_A 10 VACPKCERAGEIEG-TPCPACSGKGV 34 (53)
T ss_dssp EECTTTTTSSEETT-EECTTTTTSSE
T ss_pred ccCCCCcceeccCC-CCCccCCCCcc
Confidence 46888888888865 57888876553
No 20
>3u5c_a 40S ribosomal protein S26-A, 40S ribosomal protein S25-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_a
Probab=45.98 E-value=11 Score=28.18 Aligned_cols=26 Identities=8% Similarity=0.206 Sum_probs=19.1
Q ss_pred CCCCCCCCCCcccccCC-CccCCCccc
Q 020522 281 PQNANTPDLTIHKAKNS-ELCCSKVKQ 306 (325)
Q Consensus 281 P~~~r~~GRPk~~R~~~-~~~c~~c~~ 306 (325)
|..+|..||-|+-|... ..+|.+|.+
T Consensus 2 ~kKRrN~GR~KkgrGhv~~V~C~nCgr 28 (119)
T 3u5c_a 2 PKKRASNGRNKKGRGHVKPVRCVNCSK 28 (119)
T ss_dssp CCCCSSTTSCCCSCSCCCEEECTTTCC
T ss_pred CcccccCCCCCCCCCCCccEeeccccc
Confidence 56788889988887665 467777764
No 21
>1vq8_1 50S ribosomal protein L37E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.2 PDB: 1vq4_1* 1vq5_1* 1vq6_1* 1vq7_1* 1s72_1* 1vq9_1* 1vqk_1* 1vql_1* 1vqm_1* 1vqn_1* 1vqo_1* 1vqp_1* 1yhq_1* 1yi2_1* 1yij_1* 1yit_1* 1yj9_1* 1yjn_1* 1yjw_1* 2otj_1* ...
Probab=44.95 E-value=5.1 Score=25.74 Aligned_cols=26 Identities=15% Similarity=0.347 Sum_probs=21.1
Q ss_pred CCCccCCCccccceeeeEEeecCCCC
Q 020522 296 NSELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 296 ~~~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
+....|.||+..+-....-.|.-||-
T Consensus 15 ktH~~CrRCG~~syH~qK~~Ca~CGy 40 (57)
T 1vq8_1 15 TTHTKCRRCGEKSYHTKKKVCSSCGF 40 (57)
T ss_dssp CCEEECTTTCSEEEETTTTEETTTCT
T ss_pred CccccccccCChhhhccccccccccC
Confidence 44567999999888888888999985
No 22
>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1
Probab=44.91 E-value=12 Score=24.78 Aligned_cols=21 Identities=19% Similarity=0.373 Sum_probs=15.0
Q ss_pred CccCCCcccc-ceeeeEEeecCCCC
Q 020522 298 ELCCSKVKQV-SVVMSLYLIQPCGL 321 (325)
Q Consensus 298 ~~~c~~c~~~-gh~~~~~~~~~~~~ 321 (325)
..+|+.|++. |-. .|.| +||.
T Consensus 15 ~~rC~~C~kkvgl~--~f~C-rCg~ 36 (64)
T 1wg2_A 15 NNRCFSCNKKVGVM--GFKC-KCGS 36 (64)
T ss_dssp SCSCTTTCCCCTTS--CEEC-TTSC
T ss_pred CCcChhhCCccccc--CeEe-ecCC
Confidence 3568999874 433 6899 7986
No 23
>1wfl_A Zinc finger protein 216; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1
Probab=43.56 E-value=36 Score=23.13 Aligned_cols=20 Identities=15% Similarity=0.318 Sum_probs=14.7
Q ss_pred ccCCCcccc-ceeeeEEeecCCCC
Q 020522 299 LCCSKVKQV-SVVMSLYLIQPCGL 321 (325)
Q Consensus 299 ~~c~~c~~~-gh~~~~~~~~~~~~ 321 (325)
.+|..|++. |-. .|.|+ ||.
T Consensus 26 nRC~~CrKkvgL~--gf~Cr-Cg~ 46 (74)
T 1wfl_A 26 NRCFMCRKKVGLT--GFDCR-CGN 46 (74)
T ss_dssp TBCSSSCCBCGGG--CEECT-TSC
T ss_pred CcChhhCCccccc--CeecC-CCC
Confidence 568899884 644 48898 885
No 24
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=41.94 E-value=9.7 Score=24.98 Aligned_cols=12 Identities=17% Similarity=0.373 Sum_probs=6.4
Q ss_pred cCCCccccceee
Q 020522 300 CCSKVKQVSVVM 311 (325)
Q Consensus 300 ~c~~c~~~gh~~ 311 (325)
.|-+|.+.||+.
T Consensus 31 ~C~~Cg~~GH~a 42 (63)
T 2cqf_A 31 KCHFCQSISHMV 42 (63)
T ss_dssp CCTTTCCSSSCT
T ss_pred ccCCcCCcCCcc
Confidence 455555555543
No 25
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=41.48 E-value=7.6 Score=25.10 Aligned_cols=14 Identities=14% Similarity=0.107 Sum_probs=10.2
Q ss_pred CccCCCccccceee
Q 020522 298 ELCCSKVKQVSVVM 311 (325)
Q Consensus 298 ~~~c~~c~~~gh~~ 311 (325)
...|-+|++.||+.
T Consensus 30 ~~~C~~Cg~~GH~a 43 (60)
T 1cl4_A 30 PGLCPRCKRGKHWA 43 (60)
T ss_dssp CCSCSSCSSCSSCS
T ss_pred CcceeECCCCCCcc
Confidence 35688888888875
No 26
>3j21_e 50S ribosomal protein L37E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=39.66 E-value=11 Score=24.61 Aligned_cols=25 Identities=20% Similarity=0.453 Sum_probs=21.6
Q ss_pred CCccCCCccccceeeeEEeecCCCC
Q 020522 297 SELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 297 ~~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
+...|.||+..+-....-.|.-||-
T Consensus 16 tH~lCrRCG~~syH~qK~~Ca~CGy 40 (62)
T 3j21_e 16 THIRCRRCGRVSYNVKKGYCAACGF 40 (62)
T ss_dssp CCCBCSSSCSBCEETTTTEETTTCT
T ss_pred ceeeecccCcchhccccccccccCC
Confidence 4668999999998888889999985
No 27
>2yqq_A Zinc finger HIT domain-containing protein 3; structure genomics, ZF-HIT domain, TRIP-3, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=38.50 E-value=10 Score=24.40 Aligned_cols=19 Identities=16% Similarity=0.415 Sum_probs=15.6
Q ss_pred ccCCCccccceeeeEEeecCCCC
Q 020522 299 LCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 299 ~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
..|.-|+. .+.|+|++|+.
T Consensus 13 ~~C~vC~~----~~kY~CPrC~~ 31 (56)
T 2yqq_A 13 VVCVICLE----KPKYRCPACRV 31 (56)
T ss_dssp CCCTTTCS----CCSEECTTTCC
T ss_pred CccCcCcC----CCeeeCCCCCC
Confidence 45888876 78999999984
No 28
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...
Probab=38.10 E-value=6.3 Score=25.78 Aligned_cols=39 Identities=13% Similarity=0.246 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCcccccC------CCccCCCccccceeeeEEeecCCC
Q 020522 280 PPQNANTPDLTIHKAKN------SELCCSKVKQVSVVMSLYLIQPCG 320 (325)
Q Consensus 280 PP~~~r~~GRPk~~R~~------~~~~c~~c~~~gh~~~~~~~~~~~ 320 (325)
.|+.+..+-|.+++|.. +...|+.|+.. ...-..|+-||
T Consensus 6 VPKrK~Sksrr~~RRsh~kl~~p~l~~c~~cG~~--~~pH~vc~~CG 50 (60)
T 2zjr_Z 6 VPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGK--KLSHHICPNCG 50 (60)
T ss_dssp CCSSCCCTTHHHHHTTTCCCCCCCCEECTTTCCE--ECTTBCCTTTC
T ss_pred cCCCCCChHHhhhhcccccccCCCceECCCCCCE--eCCceEcCCCC
Confidence 36666666665555532 24789999876 45566788888
No 29
>2bw3_A Transposase; DNA recombination, transposition; 2.0A {Musca domestica} SCOP: a.270.1.1 c.55.3.12 PDB: 2bw3_B
Probab=36.60 E-value=67 Score=30.14 Aligned_cols=69 Identities=12% Similarity=0.136 Sum_probs=46.8
Q ss_pred eEEEEEEEeec--cccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHHHHHhh
Q 020522 13 IWPVAVYEVEE--ESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAK 85 (325)
Q Consensus 13 ~~~la~aiv~~--E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~n~~~~ 85 (325)
..+|++--++. .+.++-.-.+....+..|..+...+.++||....+..|+... .|..|.-|.+.-+.+.
T Consensus 131 ~~~L~~~~~~~~~~t~~~i~~~i~~~l~~~~l~~~~~v~~vtDnasn~~~~~~~~----~~i~C~~H~lnLi~~~ 201 (534)
T 2bw3_A 131 DLILGLKSLDFERSTAENIYKKLKAIFSQFNVEDLSSIKFVTDRGANVVKSLANN----IRINCSSHLLSNVLEN 201 (534)
T ss_dssp EEEEEEEEECGGGCSHHHHHHHHHHHHHTTTCCCCTTCEEEECCCHHHHHHTTTS----EEEECHHHHHHHHHHH
T ss_pred EEEEeEeecCCCCCCHHHHHHHHHHHHHHcCCCcccceeEECCCHHHHHHHHhcC----cccccHHHHHHHHHHH
Confidence 34677766764 555655555555555556653236789999999888887653 5889999998877653
No 30
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=35.13 E-value=14 Score=23.55 Aligned_cols=24 Identities=13% Similarity=0.106 Sum_probs=16.7
Q ss_pred CCccCCCccccceeeeEEeecCCCCC
Q 020522 297 SELCCSKVKQVSVVMSLYLIQPCGLS 322 (325)
Q Consensus 297 ~~~~c~~c~~~gh~~~~~~~~~~~~~ 322 (325)
....|-+|++.||.+. .|+..++.
T Consensus 6 ~~~~C~kCGk~GH~~k--~Cp~~~~~ 29 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIK--NCPTNGDK 29 (55)
T ss_dssp SSCCCTTTCCTTSCGG--GCSGGGCS
T ss_pred CCCccccCCCcCcccc--cCCCCCCC
Confidence 3567999999999874 34544443
No 31
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=33.39 E-value=18 Score=19.54 Aligned_cols=15 Identities=7% Similarity=0.062 Sum_probs=12.9
Q ss_pred CccCCCccccceeee
Q 020522 298 ELCCSKVKQVSVVMS 312 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~ 312 (325)
...|-+|.+.||...
T Consensus 6 ~~~C~nCgk~GH~ar 20 (29)
T 1nc8_A 6 VIRCWNCGKEGHSAR 20 (29)
T ss_dssp CCBCTTTSCBSSCGG
T ss_pred CCEEEECCccccCHh
Confidence 467999999999876
No 32
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=32.94 E-value=22 Score=21.05 Aligned_cols=16 Identities=13% Similarity=0.073 Sum_probs=13.3
Q ss_pred CCccCCCccccceeee
Q 020522 297 SELCCSKVKQVSVVMS 312 (325)
Q Consensus 297 ~~~~c~~c~~~gh~~~ 312 (325)
+..+|-.|++.||...
T Consensus 9 ~~~~C~~Cgk~GH~ar 24 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAK 24 (40)
T ss_dssp CSSSCSSSCCTTCCTT
T ss_pred CCCeeeECCCCCcchh
Confidence 3678999999999863
No 33
>3f2k_A Histone-lysine N-methyltransferase setmar; histone-lysine N-methyltransferase setmar, SET domain and mariner transposase fusion; 1.85A {Homo sapiens} PDB: 3k9k_A 3k9j_A
Probab=32.27 E-value=1.3e+02 Score=24.56 Aligned_cols=52 Identities=12% Similarity=0.097 Sum_probs=29.2
Q ss_pred eEEEEEcCCCCeEEEEEEEee---ccccchHHHHHHHHhhhc----cc-CCCCCeEEEeCCch
Q 020522 2 LTAVGIDANDGIWPVAVYEVE---EESNSTWYNFLLKLGEML----RV-DNGEGFCFISDGEN 56 (325)
Q Consensus 2 l~a~g~D~~~~~~~la~aiv~---~E~~~~w~wfl~~l~~~l----g~-~~~~~~~iisD~~~ 56 (325)
++..|.+++|.+ ++.+++ .=|.+.|.-+|+.+...+ .. .+..+.+|+-|...
T Consensus 74 mv~~~~s~~G~~---~~~~l~~~~tinse~Y~~~l~~l~~~l~~~~~~~~~~~~~i~~~Dna~ 133 (226)
T 3f2k_A 74 MVTIWWSAAGLI---HYSFLNPGETITSEKYAQEIDEMNQKLQRLQLALVNRKGPILLHDNAR 133 (226)
T ss_dssp EEEEEEETTEEE---EEEECCTTCCCSHHHHHHHHHHHHHHHHHHTC----CCCCEEECCCCH
T ss_pred EEEEEeecCCcE---EEEEecCCcccCHHHHHHHHHHHHHHHhhhhhHhhccCCcEEEeCCCc
Confidence 445566666544 344553 456777887877653322 11 11246788899864
No 34
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=31.55 E-value=18 Score=22.30 Aligned_cols=24 Identities=13% Similarity=0.315 Sum_probs=16.5
Q ss_pred CccCCCcccc----ceeeeEEeecCCCC
Q 020522 298 ELCCSKVKQV----SVVMSLYLIQPCGL 321 (325)
Q Consensus 298 ~~~c~~c~~~----gh~~~~~~~~~~~~ 321 (325)
...|+.|++. .......-|..||.
T Consensus 5 ~~~CP~C~~~~l~~d~~~gelvC~~CG~ 32 (50)
T 1pft_A 5 QKVCPACESAELIYDPERGEIVCAKCGY 32 (50)
T ss_dssp CCSCTTTSCCCEEEETTTTEEEESSSCC
T ss_pred cEeCcCCCCcceEEcCCCCeEECcccCC
Confidence 4579999872 22225678999997
No 35
>2zkr_2 60S ribosomal protein L37E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} SCOP: i.1.1.1
Probab=31.34 E-value=17 Score=26.00 Aligned_cols=28 Identities=11% Similarity=0.273 Sum_probs=20.8
Q ss_pred CCCccCCCccccceeeeEEeecCCCCCC
Q 020522 296 NSELCCSKVKQVSVVMSLYLIQPCGLSE 323 (325)
Q Consensus 296 ~~~~~c~~c~~~gh~~~~~~~~~~~~~~ 323 (325)
+....|.+|+..+-..--..|.-||-.+
T Consensus 14 KtH~lCrRCG~~sfH~qK~~CgkCGYpa 41 (97)
T 2zkr_2 14 KTHTLCRRCGSKAYHLQKSTCGKCGYPA 41 (97)
T ss_dssp CCEECCTTTCSSCEETTSCCBTTTCTTT
T ss_pred CCCCcCCCCCCccCcCccccCcccCCch
Confidence 4456799999877666677888888654
No 36
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1
Probab=30.46 E-value=16 Score=24.70 Aligned_cols=24 Identities=13% Similarity=0.104 Sum_probs=13.7
Q ss_pred ccCCCccccceeee-------EEeecCCCCC
Q 020522 299 LCCSKVKQVSVVMS-------LYLIQPCGLS 322 (325)
Q Consensus 299 ~~c~~c~~~gh~~~-------~~~~~~~~~~ 322 (325)
..|+.|++.|.+.. .-.|+.|+-.
T Consensus 29 ~~C~~C~G~G~~~~~~g~~~~~~~C~~C~G~ 59 (79)
T 1exk_A 29 QTCPTCHGSGQVQMRQGFFAVQQTCPHCQGR 59 (79)
T ss_dssp EECTTTTTSSEEEEEETTEEEEEECTTTTTS
T ss_pred CCCCCCcCeEEEEEEcCCCEEeeECcCCCCc
Confidence 45777777766543 2356666543
No 37
>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A*
Probab=29.74 E-value=55 Score=24.42 Aligned_cols=42 Identities=14% Similarity=0.222 Sum_probs=30.6
Q ss_pred HHHHhhhcccCCCCCeEEEeCCchh---HHHHHHhhccccccccchHH
Q 020522 33 LLKLGEMLRVDNGEGFCFISDGENG---VEDALEALMCRAEIRICAQT 77 (325)
Q Consensus 33 l~~l~~~lg~~~~~~~~iisD~~~g---l~~Av~~vfP~a~h~~C~~H 77 (325)
++.+++.... ..+.++||.+.+ |.+-+.+.+|++.|.+-.+.
T Consensus 41 l~~I~~~~~~---r~VIi~TD~D~~GekIRk~i~~~lp~~~hafi~r~ 85 (119)
T 2fcj_A 41 LEELADELEG---YDVYLLADADEAGEKLRRQFRRMFPEAEHLYIDRA 85 (119)
T ss_dssp HHHHHHHTTT---SEEEEECCSSHHHHHHHHHHHHHCTTSEEECCCTT
T ss_pred HHHHHHHhcC---CCEEEEECCCccHHHHHHHHHHHCCCCcEEeccCC
Confidence 4455555322 589999999974 66777889999998886554
No 38
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A
Probab=29.68 E-value=2.1e+02 Score=22.67 Aligned_cols=48 Identities=23% Similarity=0.172 Sum_probs=29.3
Q ss_pred EEEEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchh
Q 020522 3 TAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENG 57 (325)
Q Consensus 3 ~a~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~g 57 (325)
+.+-+|.--. ++.++.+ .+++.+.-.-+|..+....| +..|.||+...
T Consensus 74 ~l~~vD~~sr-~~~~~~~-~~~~~~~~~~~l~~~~~~~g-----~~~i~sDnG~~ 121 (210)
T 3f9k_A 74 IIVAVHVASG-FIEAEVI-PQESGRQTALFLLKLASRWP-----ITHLHTDNGAN 121 (210)
T ss_dssp EEEEEETTTT-EEEEEEE-SSCCHHHHHHHHHHHHTTSC-----CSEEEECCCTT
T ss_pred EEEEEEcCCC-cEEEEEe-CCcchHHHHHHHHHHHHHcC-----CCEEEeCCCch
Confidence 3455565554 4555554 44677777666666655554 23499999765
No 39
>1x4w_A Hypothetical protein FLJ13222; ZF-AN1 domain, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=29.58 E-value=13 Score=24.90 Aligned_cols=23 Identities=17% Similarity=0.265 Sum_probs=14.7
Q ss_pred ccCCCccccceeee--EEeecCCCCC
Q 020522 299 LCCSKVKQVSVVMS--LYLIQPCGLS 322 (325)
Q Consensus 299 ~~c~~c~~~gh~~~--~~~~~~~~~~ 322 (325)
.+|..|++.=-... .|.| +||..
T Consensus 16 ~rC~~C~kk~gL~~~egf~C-rCg~~ 40 (67)
T 1x4w_A 16 RRCFQCQTKLELVQQELGSC-RCGYV 40 (67)
T ss_dssp TBCSSSCCBCCHHHHHHHCC-SSSCC
T ss_pred CcchhhCCeecccccCceEe-cCCCE
Confidence 56888887433322 2889 88863
No 40
>1wfh_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: g.80.1.1
Probab=28.85 E-value=23 Score=23.40 Aligned_cols=20 Identities=15% Similarity=0.481 Sum_probs=14.3
Q ss_pred ccCCCcccc-ceeeeEEeecCCCC
Q 020522 299 LCCSKVKQV-SVVMSLYLIQPCGL 321 (325)
Q Consensus 299 ~~c~~c~~~-gh~~~~~~~~~~~~ 321 (325)
.+|+.|++. |-. -|.| +||.
T Consensus 16 ~rC~~C~kkvgl~--~f~C-rCg~ 36 (64)
T 1wfh_A 16 NRCTVCRKRVGLT--GFMC-RCGT 36 (64)
T ss_dssp CCCTTTCCCCCTT--CEEC-SSSC
T ss_pred CcChhhCCccCcc--CEEe-ecCC
Confidence 568889873 433 5899 6886
No 41
>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: g.41.16.1 PDB: 2aqc_A
Probab=27.23 E-value=17 Score=23.70 Aligned_cols=22 Identities=18% Similarity=0.293 Sum_probs=15.7
Q ss_pred CccCCCccccceeeeEEeecCCCCC
Q 020522 298 ELCCSKVKQVSVVMSLYLIQPCGLS 322 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~~~~~~~~~~~ 322 (325)
...|++|+...- ...|+.||..
T Consensus 6 mr~C~~CgvYTL---k~~CP~CG~~ 27 (60)
T 2apo_B 6 MKKCPKCGLYTL---KEICPKCGEK 27 (60)
T ss_dssp CEECTTTCCEES---SSBCSSSCSB
T ss_pred ceeCCCCCCEec---cccCcCCCCc
Confidence 357999976554 5568999864
No 42
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=25.99 E-value=30 Score=24.91 Aligned_cols=12 Identities=8% Similarity=0.094 Sum_probs=6.7
Q ss_pred ccCCCcccccee
Q 020522 299 LCCSKVKQVSVV 310 (325)
Q Consensus 299 ~~c~~c~~~gh~ 310 (325)
..|+.|++.|.+
T Consensus 46 ~~C~~C~G~G~~ 57 (104)
T 2ctt_A 46 QHCHYCGGSGME 57 (104)
T ss_dssp EECSSSSSSCEE
T ss_pred ccCCCCCCCEEE
Confidence 346666666544
No 43
>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X
Probab=24.64 E-value=19 Score=22.10 Aligned_cols=7 Identities=29% Similarity=0.520 Sum_probs=3.6
Q ss_pred cCCCccc
Q 020522 300 CCSKVKQ 306 (325)
Q Consensus 300 ~c~~c~~ 306 (325)
.|.||++
T Consensus 5 ~C~rCg~ 11 (48)
T 4ayb_P 5 RCGKCWK 11 (48)
T ss_dssp CCCCTTT
T ss_pred EeeccCC
Confidence 4555554
No 44
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=24.49 E-value=26 Score=18.31 Aligned_cols=14 Identities=7% Similarity=0.164 Sum_probs=12.0
Q ss_pred ccCCCccccceeee
Q 020522 299 LCCSKVKQVSVVMS 312 (325)
Q Consensus 299 ~~c~~c~~~gh~~~ 312 (325)
..|-+|.+.||..+
T Consensus 3 ~~Cf~CG~~GH~ar 16 (26)
T 1dsq_A 3 PVCFSCGKTGHIKR 16 (26)
T ss_dssp CBCTTTCCBSSCTT
T ss_pred CeeEeCCCCCcccc
Confidence 46999999999876
No 45
>2i5o_A DNA polymerase ETA; zinc finger, DNA polymerase,POL ETA, UBZ, ubiquitin-binding zinc finger, translesion synthesis, ubiquitin-binding domain; HET: DNA; NMR {Homo sapiens}
Probab=24.31 E-value=28 Score=20.44 Aligned_cols=10 Identities=20% Similarity=0.385 Sum_probs=6.7
Q ss_pred eEEeecCCCC
Q 020522 312 SLYLIQPCGL 321 (325)
Q Consensus 312 ~~~~~~~~~~ 321 (325)
..+.|++||.
T Consensus 8 ~~~~C~~C~~ 17 (39)
T 2i5o_A 8 DQVPCEKCGS 17 (39)
T ss_dssp CEEECTTTCC
T ss_pred CCcccccccC
Confidence 3567777775
No 46
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*
Probab=23.21 E-value=14 Score=28.42 Aligned_cols=8 Identities=38% Similarity=0.779 Sum_probs=3.6
Q ss_pred ccCCCccc
Q 020522 299 LCCSKVKQ 306 (325)
Q Consensus 299 ~~c~~c~~ 306 (325)
..||+|+.
T Consensus 108 ~~CP~Cgs 115 (139)
T 3a43_A 108 LACPKCGS 115 (139)
T ss_dssp CSCSSSSC
T ss_pred CcCccccC
Confidence 34555543
No 47
>4a18_A RPL37, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_A 4a1b_A 4a1d_A
Probab=22.93 E-value=20 Score=25.34 Aligned_cols=27 Identities=11% Similarity=0.321 Sum_probs=20.9
Q ss_pred cCCCccCCCccccceeeeEEeecCCCC
Q 020522 295 KNSELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 295 ~~~~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
.+....|-+|+..+-....-.|.-||-
T Consensus 13 ~KtHtlCrRCG~~syH~qK~~Ca~CGy 39 (94)
T 4a18_A 13 QKTHTLCRRCGKATYHKQKLRCAACGY 39 (94)
T ss_dssp CCCEEECTTTCSEEEETTTTEESSSCG
T ss_pred CCccceecCcCchhhhhccccccccCC
Confidence 334567999998888888888888884
No 48
>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1
Probab=22.73 E-value=35 Score=22.96 Aligned_cols=20 Identities=15% Similarity=0.212 Sum_probs=11.1
Q ss_pred cCCCccccceee---eEEeecCCCC
Q 020522 300 CCSKVKQVSVVM---SLYLIQPCGL 321 (325)
Q Consensus 300 ~c~~c~~~gh~~---~~~~~~~~~~ 321 (325)
.|+ |+...-+. .-.+|+ ||.
T Consensus 6 ~C~-C~~~~~~~~~~kT~~C~-CG~ 28 (71)
T 1gh9_A 6 RCD-CGRALYSREGAKTRKCV-CGR 28 (71)
T ss_dssp EET-TSCCEEEETTCSEEEET-TTE
T ss_pred ECC-CCCEEEEcCCCcEEECC-CCC
Confidence 466 66655444 345665 663
No 49
>3iz5_l 60S ribosomal protein L37 (L37E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_l 3izc_l 3izs_l 3o58_d 3o5h_d 3u5e_j 3u5i_j 4b6a_j 1s1i_Y 3jyw_Y
Probab=22.25 E-value=21 Score=25.32 Aligned_cols=27 Identities=15% Similarity=0.346 Sum_probs=21.3
Q ss_pred cCCCccCCCccccceeeeEEeecCCCC
Q 020522 295 KNSELCCSKVKQVSVVMSLYLIQPCGL 321 (325)
Q Consensus 295 ~~~~~~c~~c~~~gh~~~~~~~~~~~~ 321 (325)
.+....|-+|+..+-....-.|.-||-
T Consensus 13 ~KtHtlCrRCG~~syH~qK~~Ca~CGy 39 (94)
T 3iz5_l 13 NKTHTLCVRCGRRSFHLQKSTCSSCGY 39 (94)
T ss_dssp CCSEEECTTTCSEEEEGGGTEETTTCS
T ss_pred CCccceecCcCchhhhcccccccccCC
Confidence 334567999999888888888998884
No 50
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1
Probab=21.96 E-value=21 Score=30.31 Aligned_cols=26 Identities=8% Similarity=0.174 Sum_probs=16.1
Q ss_pred CccCCCccccceeee-EEeecCCCCCC
Q 020522 298 ELCCSKVKQVSVVMS-LYLIQPCGLSE 323 (325)
Q Consensus 298 ~~~c~~c~~~gh~~~-~~~~~~~~~~~ 323 (325)
+..|+.|++.|.+.. ...|+-|+-.+
T Consensus 80 ~~~C~~C~G~G~~i~~~~~C~~C~G~g 106 (248)
T 1nlt_A 80 QTECDVCHGTGDIIDPKDRCKSCNGKK 106 (248)
T ss_dssp ECSCTTCSSSSSCCCTTSBCSSSTTSC
T ss_pred EEcCCCCCCcCEEeccCCCCcccCCCc
Confidence 345777777776653 55677776544
No 51
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=21.86 E-value=44 Score=21.20 Aligned_cols=26 Identities=23% Similarity=0.554 Sum_probs=17.1
Q ss_pred CccCCCcccccee----eeEEeecCCCCCCC
Q 020522 298 ELCCSKVKQVSVV----MSLYLIQPCGLSEY 324 (325)
Q Consensus 298 ~~~c~~c~~~gh~----~~~~~~~~~~~~~~ 324 (325)
...|++|+. +.+ ..-+.|..||..++
T Consensus 18 ~~fCPkCG~-~~~ma~~~dr~~C~kCgyt~~ 47 (55)
T 2k4x_A 18 HRFCPRCGP-GVFLAEHADRYSCGRCGYTEF 47 (55)
T ss_dssp SCCCTTTTT-TCCCEECSSEEECTTTCCCEE
T ss_pred cccCcCCCC-ceeEeccCCEEECCCCCCEEE
Confidence 456888885 333 23567999987653
No 52
>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...
Probab=21.38 E-value=19 Score=24.21 Aligned_cols=25 Identities=12% Similarity=0.223 Sum_probs=19.4
Q ss_pred CCccCCCcccc--ceeeeEEeecCCCC
Q 020522 297 SELCCSKVKQV--SVVMSLYLIQPCGL 321 (325)
Q Consensus 297 ~~~~c~~c~~~--gh~~~~~~~~~~~~ 321 (325)
-...|+.|+.. -|-....+|+-||.
T Consensus 27 v~Y~C~~CG~~~e~~~~d~irCp~CG~ 53 (70)
T 1twf_L 27 LKYICAECSSKLSLSRTDAVRCKDCGH 53 (70)
T ss_dssp CCEECSSSCCEECCCTTSTTCCSSSCC
T ss_pred EEEECCCCCCcceeCCCCCccCCCCCc
Confidence 46789999987 56555678999986
No 53
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=20.81 E-value=95 Score=19.12 Aligned_cols=24 Identities=21% Similarity=0.499 Sum_probs=16.2
Q ss_pred CccCCCccccceee-------------eEEeecCCCC
Q 020522 298 ELCCSKVKQVSVVM-------------SLYLIQPCGL 321 (325)
Q Consensus 298 ~~~c~~c~~~gh~~-------------~~~~~~~~~~ 321 (325)
..+|++|+....+. .-|.|..||.
T Consensus 9 ~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~ 45 (50)
T 1tfi_A 9 LFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGN 45 (50)
T ss_dssp CSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCC
T ss_pred ccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCC
Confidence 46799998766543 2377777774
No 54
>1wfp_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: g.80.1.1
Probab=20.18 E-value=52 Score=22.31 Aligned_cols=20 Identities=20% Similarity=0.385 Sum_probs=13.4
Q ss_pred ccCCCcccc-ceeeeEEeecCCCC
Q 020522 299 LCCSKVKQV-SVVMSLYLIQPCGL 321 (325)
Q Consensus 299 ~~c~~c~~~-gh~~~~~~~~~~~~ 321 (325)
.+|+.|++. |-. -|.| +||.
T Consensus 26 ~RC~~C~kkvgL~--~f~C-rCg~ 46 (74)
T 1wfp_A 26 TRCLSCNKKVGVT--GFKC-RCGS 46 (74)
T ss_dssp CBCSSSCCBCTTT--CEEC-TTSC
T ss_pred ccchhhcCccccc--ceEe-ccCC
Confidence 458888753 332 5888 7886
No 55
>3u5c_b RP61, YS20, 40S ribosomal protein S27-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_X 3u5g_b
Probab=20.02 E-value=13 Score=25.83 Aligned_cols=24 Identities=13% Similarity=0.321 Sum_probs=19.3
Q ss_pred CccCCCcccc----ceeeeEEeecCCCC
Q 020522 298 ELCCSKVKQV----SVVMSLYLIQPCGL 321 (325)
Q Consensus 298 ~~~c~~c~~~----gh~~~~~~~~~~~~ 321 (325)
..+|+.|... ||..+.-+|.-||.
T Consensus 34 ~VkCp~C~~~q~VFSha~t~V~C~~Cg~ 61 (82)
T 3u5c_b 34 DVKCPGCLNITTVFSHAQTAVTCESCST 61 (82)
T ss_dssp EEECTTSCSCEEEESBCSSCCCCSSSCC
T ss_pred EEECCCCCCeeEEEecCCeEEEccccCC
Confidence 4899999875 66678888998885
Done!