Query 006619
Match_columns 638
No_of_seqs 270 out of 1886
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 04:26:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006619.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/006619hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2lli_A Protein AIR2; RNA surve 99.9 1.3E-23 4.4E-28 190.5 11.0 83 422-513 4-87 (124)
2 2lli_A Protein AIR2; RNA surve 99.9 1.9E-23 6.4E-28 189.4 10.4 108 444-589 4-124 (124)
3 3nyb_B Protein AIR2; polya RNA 99.6 1.2E-15 4E-20 131.2 4.8 68 516-595 4-71 (83)
4 3nyb_B Protein AIR2; polya RNA 99.2 4.4E-12 1.5E-16 109.0 4.2 59 446-509 7-65 (83)
5 2li8_A Protein LIN-28 homolog 99.2 1.2E-11 4.1E-16 104.1 4.7 44 540-590 23-66 (74)
6 2a51_A Nucleocapsid protein; s 99.1 3.2E-11 1.1E-15 89.4 3.9 39 542-588 1-39 (39)
7 2li8_A Protein LIN-28 homolog 99.1 6.9E-11 2.4E-15 99.5 3.9 65 431-510 2-66 (74)
8 2ec7_A GAG polyprotein (PR55GA 99.0 1.2E-10 4E-15 90.4 4.4 43 540-590 5-47 (49)
9 1a1t_A Nucleocapsid protein; s 99.0 1.8E-10 6.2E-15 90.9 4.4 43 540-590 11-53 (55)
10 2bl6_A Nucleocapsid protein P1 99.0 1.5E-10 5.1E-15 84.9 3.4 37 542-588 1-37 (37)
11 1cl4_A Protein (GAG polyprotei 99.0 1.6E-10 5.4E-15 92.8 3.4 50 542-591 2-51 (60)
12 2ihx_A Nucleocapsid (NC) prote 99.0 2.8E-10 9.6E-15 92.0 4.0 49 541-592 4-52 (61)
13 2cqf_A RNA-binding protein LIN 98.9 9.5E-10 3.2E-14 89.6 5.3 44 541-591 7-50 (63)
14 2a51_A Nucleocapsid protein; s 98.8 2E-09 7E-14 79.7 3.6 37 424-461 2-38 (39)
15 2cqf_A RNA-binding protein LIN 98.8 5.8E-09 2E-13 84.9 4.7 40 422-461 7-46 (63)
16 3ts2_A Protein LIN-28 homolog 98.8 4.2E-09 1.4E-13 98.9 4.4 45 541-592 97-141 (148)
17 2bl6_A Nucleocapsid protein P1 98.7 5.5E-09 1.9E-13 76.5 3.3 16 425-440 3-18 (37)
18 2ec7_A GAG polyprotein (PR55GA 98.7 6.2E-09 2.1E-13 80.8 3.8 41 421-462 5-45 (49)
19 2ihx_A Nucleocapsid (NC) prote 98.7 1.2E-08 4.2E-13 82.4 3.7 49 421-484 3-51 (61)
20 1a1t_A Nucleocapsid protein; s 98.6 1.3E-08 4.5E-13 80.2 3.4 41 421-462 11-51 (55)
21 1cl4_A Protein (GAG polyprotei 98.6 8.5E-09 2.9E-13 82.7 2.1 49 423-483 2-50 (60)
22 3ts2_A Protein LIN-28 homolog 98.5 3.3E-08 1.1E-12 92.8 3.7 41 421-461 96-136 (148)
23 1dsq_A Nucleic acid binding pr 97.7 1.2E-05 4.2E-10 54.9 2.1 21 571-591 3-23 (26)
24 1a6b_B Momulv, zinc finger pro 97.5 6.4E-05 2.2E-09 56.6 3.6 26 568-593 8-33 (40)
25 1nc8_A Nucleocapsid protein; H 97.4 6.5E-05 2.2E-09 52.4 2.5 21 570-590 6-26 (29)
26 1u6p_A GAG polyprotein; MLV, A 97.3 0.00014 4.7E-09 58.5 3.5 26 568-593 21-46 (56)
27 1dsq_A Nucleic acid binding pr 97.3 9.5E-05 3.2E-09 50.4 2.1 21 541-561 2-22 (26)
28 1nc8_A Nucleocapsid protein; H 97.1 0.00016 5.6E-09 50.3 1.7 21 541-561 6-26 (29)
29 1a6b_B Momulv, zinc finger pro 96.8 0.00083 2.8E-08 50.5 3.2 22 541-562 10-31 (40)
30 2ysa_A Retinoblastoma-binding 96.6 0.00068 2.3E-08 54.2 1.9 21 570-590 7-27 (55)
31 1u6p_A GAG polyprotein; MLV, A 96.4 0.0022 7.5E-08 51.5 3.5 22 420-441 21-42 (56)
32 2ysa_A Retinoblastoma-binding 95.3 0.0065 2.2E-07 48.6 2.1 20 422-441 7-26 (55)
33 2ysm_A Myeloid/lymphoid or mix 60.8 10 0.00035 33.0 4.9 71 490-588 7-85 (111)
34 2ysm_A Myeloid/lymphoid or mix 48.3 31 0.0011 29.9 5.9 31 517-547 69-101 (111)
35 3alr_A Nanos protein; zinc-fin 39.9 7.3 0.00025 34.9 0.5 34 551-592 54-96 (106)
36 2hqh_E Restin; beta/BETA struc 39.4 8.9 0.0003 26.5 0.7 18 491-508 4-21 (26)
37 2yuc_A TNF receptor-associated 37.6 48 0.0016 26.4 5.0 20 473-499 34-53 (76)
38 3v43_A Histone acetyltransfera 34.2 25 0.00085 30.9 3.0 17 517-533 26-42 (112)
39 2yuc_A TNF receptor-associated 29.0 1E+02 0.0035 24.3 5.7 48 432-483 7-70 (76)
40 3alr_A Nanos protein; zinc-fin 28.5 13 0.00044 33.3 0.2 18 491-508 72-92 (106)
41 3v43_A Histone acetyltransfera 27.5 1.6E+02 0.0055 25.6 7.1 33 517-549 77-111 (112)
42 2hqh_E Restin; beta/BETA struc 25.2 23 0.0008 24.4 0.9 17 572-588 5-21 (26)
43 1g3j_B TCF3-CBD (catenin bindi 24.3 19 0.00065 29.4 0.4 48 271-318 1-48 (61)
44 1fp0_A KAP-1 corepressor; PHD 20.7 1.5E+02 0.0051 25.5 5.4 46 489-549 24-71 (88)
45 1nlt_A Protein YDJ1, mitochond 20.5 99 0.0034 30.6 4.9 29 422-456 38-66 (248)
46 2l5u_A Chromodomain-helicase-D 20.2 41 0.0014 26.5 1.6 47 490-551 11-59 (61)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.89 E-value=1.3e-23 Score=190.45 Aligned_cols=83 Identities=24% Similarity=0.558 Sum_probs=76.0
Q ss_pred ccccccccccCccccccccCCCCccccccCCC-CCCCcCCCCCccCcCcCCCCCCCCCCCCCCCCCCCCCCccccCCCCC
Q 006619 422 SETCSNCGKENHTAATCKMQKQNKPCFLCGSF-KHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSG 500 (638)
Q Consensus 422 ~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~-GH~a~dCP~~~~CfnCge~GH~ArdCPe~~~~~~~~~~~C~rCG~~G 500 (638)
...||+|++.||++++||.. .|++||+. ||++++||....|++|++.||++++||.... ...|++|++.|
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~~----~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~-----~~~C~~Cg~~G 74 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPHI----ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWK-----KVQCTLCKSKK 74 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTSC----CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCC-----CCSSSSSCSSC
T ss_pred CCcccCCCCCCcCcccCcCC----cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCccc-----CccCCCCCcCC
Confidence 46799999999999999994 89999999 9999999998899999999999999998743 37899999999
Q ss_pred CCcccCCCcCccC
Q 006619 501 HDLSSCEGEYHAD 513 (638)
Q Consensus 501 H~akdCP~~~~~~ 513 (638)
|++++||..|..|
T Consensus 75 H~~~~Cp~~~~~y 87 (124)
T 2lli_A 75 HSKERCPSIWRAY 87 (124)
T ss_dssp CCTTTCCCSTTSC
T ss_pred cchhhCCCccccc
Confidence 9999999998754
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.89 E-value=1.9e-23 Score=189.37 Aligned_cols=108 Identities=27% Similarity=0.626 Sum_probs=82.7
Q ss_pred CccccccCCCCCCCcCCCCCccCcCcCCC-CCCCCCCCCCCCCCCCCCCccccCCCCCCCcccCCCcCccCcccCccccc
Q 006619 444 NKPCFLCGSFKHRWKNCKQGQDCFINKGS-EHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYI 522 (638)
Q Consensus 444 ~~~C~~CG~~GH~a~dCP~~~~CfnCge~-GH~ArdCPe~~~~~~~~~~~C~rCG~~GH~akdCP~~~~~~~~k~~tCy~ 522 (638)
...||+|++.||++++||. ..||+|++. ||++++||.. ..|++|++.||++.+||..+.
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~-~~C~~Cg~~~gH~~~~C~~~--------~~C~~Cg~~GH~~~~C~~~~~----------- 63 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPH-IICSYCGATDDHYSRHCPKA--------IQCSKCDEVGHYRSQCPHKWK----------- 63 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTS-CCCTTTCCTTTCCTTTGGGS--------SCSSSSSCSSSSTTTSCCCCC-----------
T ss_pred CCcccCCCCCCcCcccCcC-CcCcCCCCcCCccCcccCCc--------ccccccCCCCCccccCcCccc-----------
Confidence 3579999999999999987 689999998 8999999874 578999999999888886531
Q ss_pred CCCCcccccccCccccccccccccCCCCCccCCCCCCccccc------------cCCCCCccccccCCCCccCCCCCCC
Q 006619 523 CKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEAL------------NGKKSNLICYKCGKEGHFARRCGSN 589 (638)
Q Consensus 523 CGs~GHl~C~~~s~~Cp~~vsCYnCGe~GH~srDCP~~r~~~------------s~~~s~~~CynCGe~GHfArDCP~~ 589 (638)
...||+|++.||++++||..+... ..+...++||+||+.|||++|||+.
T Consensus 64 ------------------~~~C~~Cg~~GH~~~~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~~ 124 (124)
T 2lli_A 64 ------------------KVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEK 124 (124)
T ss_dssp ------------------CCSSSSSCSSCCCTTTCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCCC
T ss_pred ------------------CccCCCCCcCCcchhhCCCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcCC
Confidence 245677777777777777654310 1122468999999999999999974
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.57 E-value=1.2e-15 Score=131.22 Aligned_cols=68 Identities=26% Similarity=0.471 Sum_probs=43.4
Q ss_pred cCcccccCCCCcccccccCccccccccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCCCCCcc
Q 006619 516 KKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLR 595 (638)
Q Consensus 516 k~~tCy~CGs~GHl~C~~~s~~Cp~~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~~~~~R 595 (638)
+.+.||+|+++||+ +.+||..++||+|+..||++++|+.+. ....||+||+.|||++|||+++.++.+
T Consensus 4 k~~~C~~Cg~~GH~-----~~~Cp~~~rcY~c~~~gh~~~~c~~p~-------~~~~CYnCG~~GH~~rdC~~~r~s~~p 71 (83)
T 3nyb_B 4 KKVQCTLCKSKKHS-----KERCPSIWRAYILVDDNEKAKPKVLPF-------HTIYCYNCGGKGHFGDDCKEKRSSRVP 71 (83)
T ss_dssp ---CCSSSCCSSSC-----GGGCGGGTCCCCBC--------------------CCCBCSSSSCBSSCGGGCSSCCSCSSC
T ss_pred ccCCCCCCCCCCCc-----cccCCCcccccccccCCcccccccCCC-------CCCeecccCCCCcCcccCCccccCcCC
Confidence 35678888888887 577777888999999999999998753 368999999999999999998866543
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.22 E-value=4.4e-12 Score=109.04 Aligned_cols=59 Identities=25% Similarity=0.447 Sum_probs=23.9
Q ss_pred cccccCCCCCCCcCCCCCccCcCcCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCcccCCCc
Q 006619 446 PCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGE 509 (638)
Q Consensus 446 ~C~~CG~~GH~a~dCP~~~~CfnCge~GH~ArdCPe~~~~~~~~~~~C~rCG~~GH~akdCP~~ 509 (638)
.|++|++.||++.+||....||+|+..||++++|+.+.. ...||+||+.||+.++||..
T Consensus 7 ~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~~-----~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 7 QCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFH-----TIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCSSSCCSSSCGGGCGGGTCCCCBC-------------C-----CCBCSSSSCBSSCGGGCSSC
T ss_pred CCCCCCCCCCccccCCCcccccccccCCcccccccCCCC-----CCeecccCCCCcCcccCCcc
Confidence 344444444444444443345555555555555554321 35566666666666666654
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.18 E-value=1.2e-11 Score=104.14 Aligned_cols=44 Identities=30% Similarity=0.553 Sum_probs=38.2
Q ss_pred cccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCC
Q 006619 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNF 590 (638)
Q Consensus 540 ~~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~ 590 (638)
....||+|++.||++++||.+. ....||+||+.||++++||+..
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~~-------~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLPP-------QPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSCC-------CCCCCTTTCCTTSCGGGCTTGG
T ss_pred CCCcccccCCcCcCcccCCCCC-------CCCccCCcCCcCCccCcCcCCc
Confidence 3578999999999999999753 2578999999999999999865
No 6
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.12 E-value=3.2e-11 Score=89.44 Aligned_cols=39 Identities=31% Similarity=0.873 Sum_probs=35.2
Q ss_pred cccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCC
Q 006619 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGS 588 (638)
Q Consensus 542 vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~ 588 (638)
+.||+|++.||++++||.++ ...||+||+.||++++||+
T Consensus 1 i~C~~Cg~~GH~a~~C~~~~--------~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 1 LTCFNCGKPGHTARMCRQPR--------QEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CBCTTTCCBSSCTTTCCSCC--------CSSCTTTCCSSSCTTTSCC
T ss_pred CeeeccCCCCcccccCCCCC--------CCccccCCCCCCccCcCcC
Confidence 47999999999999999863 4689999999999999995
No 7
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.06 E-value=6.9e-11 Score=99.51 Aligned_cols=65 Identities=23% Similarity=0.383 Sum_probs=35.0
Q ss_pred cCccccccccCCCCccccccCCCCCCCcCCCCCccCcCcCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCcccCCCcC
Q 006619 431 ENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEY 510 (638)
Q Consensus 431 ~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP~~~~CfnCge~GH~ArdCPe~~~~~~~~~~~C~rCG~~GH~akdCP~~~ 510 (638)
.||++++|+.+.... ....=.....||+|++.||++++||.... ...|++|++.||++++||...
T Consensus 2 ~gh~~rdc~~~~~~~----------~~~~~~r~~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 2 SGLVPRGSHMPKGKS----------MQKRRSKGDRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp ----------CCCCC----------CCSCCSTTSCCTTTCCSSSCTTTCSSCCC-----CCCCTTTCCTTSCGGGCTTGG
T ss_pred CccccCcCCCCCcCc----------cccccCCCCcccccCCcCcCcccCCCCCC-----CCccCCcCCcCCccCcCcCCc
Confidence 589999999873221 00000123568888888888888886532 367888888888888888754
No 8
>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=99.04 E-value=1.2e-10 Score=90.44 Aligned_cols=43 Identities=37% Similarity=0.933 Sum_probs=38.0
Q ss_pred cccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCC
Q 006619 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNF 590 (638)
Q Consensus 540 ~~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~ 590 (638)
....||+|++.||++++||.++ ...||+||+.||++++||+..
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~~--------~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAPR--------RQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCSS--------CCSCSSSCCSSCCGGGCCSSC
T ss_pred CcCeeeecCCCCcChhhCcCCC--------CCeeCcCCCcCCccCCCcCCC
Confidence 3578999999999999999863 368999999999999999865
No 9
>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=99.01 E-value=1.8e-10 Score=90.93 Aligned_cols=43 Identities=42% Similarity=1.005 Sum_probs=38.2
Q ss_pred cccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCC
Q 006619 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNF 590 (638)
Q Consensus 540 ~~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~ 590 (638)
....||+|++.||++++||.++ ...||+||+.||++++||...
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~~--------~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAPR--------KKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSCS--------CCBCTTTCCBSSCGGGCSSSC
T ss_pred CCcceeeeCCCCcChhhcCCCC--------CCEeCCCCCcCCccCCCcCcC
Confidence 4578999999999999999863 468999999999999999865
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.01 E-value=1.5e-10 Score=84.90 Aligned_cols=37 Identities=46% Similarity=1.286 Sum_probs=33.4
Q ss_pred cccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCC
Q 006619 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGS 588 (638)
Q Consensus 542 vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~ 588 (638)
+.||+|++.||++++||.+ ..||+|++.||++++||+
T Consensus 1 ~~C~~Cg~~GH~~~~C~~~----------~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 1 QTCYNCGKPGHLSSQCRAP----------KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CCBSSSCCSSCCTTTSSCB----------TTCSSCCCTTGGGGTTCC
T ss_pred CcccccCCCCcchhhCcCc----------CeEccCCCcCCccCcCcC
Confidence 3699999999999999964 589999999999999985
No 11
>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=98.99 E-value=1.6e-10 Score=92.76 Aligned_cols=50 Identities=28% Similarity=0.701 Sum_probs=20.3
Q ss_pred cccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCCC
Q 006619 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFK 591 (638)
Q Consensus 542 vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~~ 591 (638)
..||+|++.||++++||..............||+||+.||++++||+...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp ---------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred CccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 36999999999999999875321111135789999999999999998864
No 12
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.97 E-value=2.8e-10 Score=91.98 Aligned_cols=49 Identities=29% Similarity=0.645 Sum_probs=39.4
Q ss_pred ccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCCCC
Q 006619 541 QVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKD 592 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~~~ 592 (638)
...||+|++.||++++||.+.... .....||+|++.||++++||+....
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~---~~~~~C~~Cg~~GH~ar~C~~~~~~ 52 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSG---NSRERCQLCNGMGHNAKQCRKRDGN 52 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSS---CCCSBCTTTCCBSSCGGGCCCCC--
T ss_pred CCcccccCCCCeehhhCcCCcCCC---CCCCeeCCCCCCCCCcCCCcCCCcC
Confidence 568999999999999999875311 1247899999999999999988754
No 13
>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=98.92 E-value=9.5e-10 Score=89.57 Aligned_cols=44 Identities=27% Similarity=0.540 Sum_probs=38.4
Q ss_pred ccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCCC
Q 006619 541 QVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFK 591 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~~ 591 (638)
...||+|++.||++++||.+. ....||+|++.||++++||+...
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~-------~~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPP-------QPKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCC-------CSSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCcccccCCCCcChhhCCCCC-------CCCccCCcCCcCCccCcCCCccc
Confidence 578999999999999999753 25799999999999999998753
No 14
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=98.82 E-value=2e-09 Score=79.68 Aligned_cols=37 Identities=46% Similarity=1.048 Sum_probs=24.5
Q ss_pred ccccccccCccccccccCCCCccccccCCCCCCCcCCC
Q 006619 424 TCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCK 461 (638)
Q Consensus 424 ~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP 461 (638)
.||+|++.||++++||.+ +...|++||+.||++++||
T Consensus 2 ~C~~Cg~~GH~a~~C~~~-~~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQP-RQEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp BCTTTCCBSSCTTTCCSC-CCSSCTTTCCSSSCTTTSC
T ss_pred eeeccCCCCcccccCCCC-CCCccccCCCCCCccCcCc
Confidence 588888888888888875 2345555555555555554
No 15
>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=98.75 E-value=5.8e-09 Score=84.93 Aligned_cols=40 Identities=38% Similarity=0.847 Sum_probs=24.6
Q ss_pred ccccccccccCccccccccCCCCccccccCCCCCCCcCCC
Q 006619 422 SETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCK 461 (638)
Q Consensus 422 ~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP 461 (638)
...||+|++.||++++||.+.....||+|++.||++++||
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp 46 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCP 46 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCT
T ss_pred CCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCC
Confidence 4678888888888888887533334444444444444444
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=98.75 E-value=4.2e-09 Score=98.90 Aligned_cols=45 Identities=27% Similarity=0.535 Sum_probs=38.7
Q ss_pred ccccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCCCCC
Q 006619 541 QVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKD 592 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~~~~ 592 (638)
...||+|++.||++++||.+. ....||+||+.||++++||+....
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~-------~~~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPP-------QPKKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCC-------CCCCCTTTCCSSCCGGGCTTTTC-
T ss_pred CCcccEeCCccchhhhCCCCC-------CCCcccccCCcCCEeccCcCCCCC
Confidence 568999999999999999853 256899999999999999987644
No 17
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.72 E-value=5.5e-09 Score=76.53 Aligned_cols=16 Identities=44% Similarity=1.144 Sum_probs=8.2
Q ss_pred cccccccCcccccccc
Q 006619 425 CSNCGKENHTAATCKM 440 (638)
Q Consensus 425 CfnCGe~GH~ArdCP~ 440 (638)
||+|++.||++++||.
T Consensus 3 C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 3 CYNCGKPGHLSSQCRA 18 (37)
T ss_dssp BSSSCCSSCCTTTSSC
T ss_pred ccccCCCCcchhhCcC
Confidence 5555555555555544
No 18
>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=98.72 E-value=6.2e-09 Score=80.76 Aligned_cols=41 Identities=34% Similarity=0.832 Sum_probs=25.2
Q ss_pred cccccccccccCccccccccCCCCccccccCCCCCCCcCCCC
Q 006619 421 NSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQ 462 (638)
Q Consensus 421 ~~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP~ 462 (638)
....||+||+.||++++||.+ ....|++||+.||++++||.
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~-~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAP-RRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCS-SCCSCSSSCCSSCCGGGCCS
T ss_pred CcCeeeecCCCCcChhhCcCC-CCCeeCcCCCcCCccCCCcC
Confidence 356788888888888888775 22345555554444444443
No 19
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.65 E-value=1.2e-08 Score=82.37 Aligned_cols=49 Identities=24% Similarity=0.564 Sum_probs=35.1
Q ss_pred cccccccccccCccccccccCCCCccccccCCCCCCCcCCCCCccCcCcCCCCCCCCCCCCCCC
Q 006619 421 NSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQ 484 (638)
Q Consensus 421 ~~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP~~~~CfnCge~GH~ArdCPe~~~ 484 (638)
....||+|++.||++++||...... +....||+|++.||++++||....
T Consensus 3 ~~~~C~~Cg~~GH~a~~C~~~~~~~---------------~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 3 ARGLCYTCGSPGHYQAQCPKKRKSG---------------NSRERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp CTTBCSSSCCBTCCGGGCTTTTSSS---------------CCCSBCTTTCCBSSCGGGCCCCC-
T ss_pred CCCcccccCCCCeehhhCcCCcCCC---------------CCCCeeCCCCCCCCCcCCCcCCCc
Confidence 3578999999999999998863210 113568888888888888887653
No 20
>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=98.64 E-value=1.3e-08 Score=80.23 Aligned_cols=41 Identities=39% Similarity=0.933 Sum_probs=27.0
Q ss_pred cccccccccccCccccccccCCCCccccccCCCCCCCcCCCC
Q 006619 421 NSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQ 462 (638)
Q Consensus 421 ~~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP~ 462 (638)
....||+|++.||++++||.+ ....|++||+.||++++||.
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~-~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAP-RKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSC-SCCBCTTTCCBSSCGGGCSS
T ss_pred CCcceeeeCCCCcChhhcCCC-CCCEeCCCCCcCCccCCCcC
Confidence 456788888888888888875 22345555555555555553
No 21
>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=98.63 E-value=8.5e-09 Score=82.68 Aligned_cols=49 Identities=29% Similarity=0.516 Sum_probs=17.7
Q ss_pred cccccccccCccccccccCCCCccccccCCCCCCCcCCCCCccCcCcCCCCCCCCCCCCCC
Q 006619 423 ETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTD 483 (638)
Q Consensus 423 ~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP~~~~CfnCge~GH~ArdCPe~~ 483 (638)
..||+|++.||++++||...... .. ......||+|++.||++++||...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~-----------~~-~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNN-----------AE-PKVPGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp ---------------------------------------CCCSCSSCSSCSSCSTTCCCTT
T ss_pred CccccCCCCCcCHhhCcCCCCCc-----------cc-cCCCcceeECCCCCCccCcCCCcc
Confidence 46999999999999999863210 00 112367899999999999998875
No 22
>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=98.54 E-value=3.3e-08 Score=92.85 Aligned_cols=41 Identities=37% Similarity=0.835 Sum_probs=27.4
Q ss_pred cccccccccccCccccccccCCCCccccccCCCCCCCcCCC
Q 006619 421 NSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCK 461 (638)
Q Consensus 421 ~~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~a~dCP 461 (638)
+...||+||+.||++++||.+.....||+|++.||++++||
T Consensus 96 ~~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp 136 (148)
T 3ts2_A 96 GGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCP 136 (148)
T ss_dssp CSCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCT
T ss_pred CCCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCc
Confidence 36789999999999999998643334444444444444444
No 23
>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=97.72 E-value=1.2e-05 Score=54.87 Aligned_cols=21 Identities=38% Similarity=1.069 Sum_probs=15.0
Q ss_pred ccccccCCCCccCCCCCCCCC
Q 006619 571 LICYKCGKEGHFARRCGSNFK 591 (638)
Q Consensus 571 ~~CynCGe~GHfArDCP~~~~ 591 (638)
..||+||+.|||+++||++..
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEXX 23 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC--
T ss_pred CeeEeCCCCCcccccCCCccc
Confidence 468888888888888887653
No 24
>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=97.51 E-value=6.4e-05 Score=56.59 Aligned_cols=26 Identities=23% Similarity=0.548 Sum_probs=21.0
Q ss_pred CCCccccccCCCCccCCCCCCCCCCC
Q 006619 568 KSNLICYKCGKEGHFARRCGSNFKDR 593 (638)
Q Consensus 568 ~s~~~CynCGe~GHfArDCP~~~~~~ 593 (638)
.....||+||+.|||+++||.+....
T Consensus 8 ~~~~~C~~Cgk~GH~ardCP~~~~~~ 33 (40)
T 1a6b_B 8 LDRDQCAYCKEKGHWAKDCPKKPRGP 33 (40)
T ss_dssp CCSSSCSSSCCTTCCTTSCSSSCCCT
T ss_pred CCCCeeeECCCCCcchhhCcCCcccC
Confidence 34578999999999999999877643
No 25
>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=97.41 E-value=6.5e-05 Score=52.38 Aligned_cols=21 Identities=48% Similarity=1.037 Sum_probs=14.3
Q ss_pred CccccccCCCCccCCCCCCCC
Q 006619 570 NLICYKCGKEGHFARRCGSNF 590 (638)
Q Consensus 570 ~~~CynCGe~GHfArDCP~~~ 590 (638)
...||+||+.||++++||.+.
T Consensus 6 ~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSS
T ss_pred CCEEEECCccccCHhHCcccc
Confidence 356777777777777777654
No 26
>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=97.31 E-value=0.00014 Score=58.46 Aligned_cols=26 Identities=23% Similarity=0.548 Sum_probs=21.3
Q ss_pred CCCccccccCCCCccCCCCCCCCCCC
Q 006619 568 KSNLICYKCGKEGHFARRCGSNFKDR 593 (638)
Q Consensus 568 ~s~~~CynCGe~GHfArDCP~~~~~~ 593 (638)
.....||+||+.|||++|||......
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~~~~ 46 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKPRGP 46 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCCCSS
T ss_pred CCCCcceeCCCCCcccccCcCCcccc
Confidence 34578999999999999999987654
No 27
>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=97.29 E-value=9.5e-05 Score=50.43 Aligned_cols=21 Identities=29% Similarity=0.998 Sum_probs=18.2
Q ss_pred ccccccCCCCCccCCCCCCcc
Q 006619 541 QVSCYNCGQSGHLGPECANSC 561 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r 561 (638)
...||+||+.||++++||.+.
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~~ 22 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC-
T ss_pred CCeeEeCCCCCcccccCCCcc
Confidence 357999999999999999875
No 28
>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=97.10 E-value=0.00016 Score=50.33 Aligned_cols=21 Identities=33% Similarity=0.971 Sum_probs=19.1
Q ss_pred ccccccCCCCCccCCCCCCcc
Q 006619 541 QVSCYNCGQSGHLGPECANSC 561 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r 561 (638)
.+.||+||+.||++++|+.++
T Consensus 6 ~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSS
T ss_pred CCEEEECCccccCHhHCcccc
Confidence 578999999999999999875
No 29
>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=96.76 E-value=0.00083 Score=50.54 Aligned_cols=22 Identities=23% Similarity=0.658 Sum_probs=20.0
Q ss_pred ccccccCCCCCccCCCCCCccc
Q 006619 541 QVSCYNCGQSGHLGPECANSCE 562 (638)
Q Consensus 541 ~vsCYnCGe~GH~srDCP~~r~ 562 (638)
...||+|++.||+++|||++..
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~ 31 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPR 31 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCC
T ss_pred CCeeeECCCCCcchhhCcCCcc
Confidence 6789999999999999999764
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=96.61 E-value=0.00068 Score=54.24 Aligned_cols=21 Identities=38% Similarity=1.107 Sum_probs=17.0
Q ss_pred CccccccCCCCccCCCCCCCC
Q 006619 570 NLICYKCGKEGHFARRCGSNF 590 (638)
Q Consensus 570 ~~~CynCGe~GHfArDCP~~~ 590 (638)
...||+||+.|||+++||...
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGGG
T ss_pred CCccccCCCcCcccccCCCCC
Confidence 467999999999999998543
No 31
>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=96.39 E-value=0.0022 Score=51.48 Aligned_cols=22 Identities=23% Similarity=0.666 Sum_probs=19.0
Q ss_pred ccccccccccccCccccccccC
Q 006619 420 WNSETCSNCGKENHTAATCKMQ 441 (638)
Q Consensus 420 ~~~~~CfnCGe~GH~ArdCP~~ 441 (638)
.....||+||+.|||+++||..
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTC
T ss_pred CCCCcceeCCCCCcccccCcCC
Confidence 3467899999999999999986
No 32
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=95.33 E-value=0.0065 Score=48.59 Aligned_cols=20 Identities=35% Similarity=0.747 Sum_probs=15.4
Q ss_pred ccccccccccCccccccccC
Q 006619 422 SETCSNCGKENHTAATCKMQ 441 (638)
Q Consensus 422 ~~~CfnCGe~GH~ArdCP~~ 441 (638)
...||+||+.||++++||..
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGG
T ss_pred CCccccCCCcCcccccCCCC
Confidence 45688888888888888853
No 33
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}
Probab=60.80 E-value=10 Score=33.01 Aligned_cols=71 Identities=28% Similarity=0.544 Sum_probs=37.1
Q ss_pred CCccccCCCCCCCcccCCCcCccCcccCcccccCCCCcccccccCcccc--ccccc------cccCCCCCccCCCCCCcc
Q 006619 490 SNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIG--LKQVS------CYNCGQSGHLGPECANSC 561 (638)
Q Consensus 490 ~~~C~rCG~~GH~akdCP~~~~~~~~k~~tCy~CGs~GHl~C~~~s~~C--p~~vs------CYnCGe~GH~srDCP~~r 561 (638)
...|..|+..|... .-+.|..|....|+.|....... ...|. |..|++.++-
T Consensus 7 ~~~C~~C~~~g~~~------------~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~~C~~C~~~~~~-------- 66 (111)
T 2ysm_A 7 GANCAVCDSPGDLL------------DQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECKVCQNCKQSGED-------- 66 (111)
T ss_dssp CSCBTTTCCCCCTT------------TSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTCCCTTTCCCSCC--------
T ss_pred CCCCcCCCCCCCCc------------CCeECCCCCCCcChHHhCCccccccccCccCCcCCcccccCccCCC--------
Confidence 45677777666431 12466677777777665432211 12343 4445554431
Q ss_pred ccccCCCCCccccccCCCCccCCCCCC
Q 006619 562 EALNGKKSNLICYKCGKEGHFARRCGS 588 (638)
Q Consensus 562 ~~~s~~~s~~~CynCGe~GHfArDCP~ 588 (638)
..-..|-.|...=|+. |-.
T Consensus 67 ------~~ll~Cd~C~~~yH~~--Cl~ 85 (111)
T 2ysm_A 67 ------SKMLVCDTCDKGYHTF--CLQ 85 (111)
T ss_dssp ------TTEEECSSSCCEEEGG--GSS
T ss_pred ------CCeeECCCCCcHHhHH--hcC
Confidence 1235677777765554 544
No 34
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}
Probab=48.27 E-value=31 Score=29.91 Aligned_cols=31 Identities=23% Similarity=0.523 Sum_probs=16.4
Q ss_pred CcccccCCCCcccccccCc--cccccccccccC
Q 006619 517 KIQCYICKSFGHLCCVNSS--IIGLKQVSCYNC 547 (638)
Q Consensus 517 ~~tCy~CGs~GHl~C~~~s--~~Cp~~vsCYnC 547 (638)
-..|..|...=|+.|..+. ......|.|..|
T Consensus 69 ll~Cd~C~~~yH~~Cl~ppl~~~P~g~W~C~~C 101 (111)
T 2ysm_A 69 MLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101 (111)
T ss_dssp EEECSSSCCEEEGGGSSSCCSSCCSSCCCCHHH
T ss_pred eeECCCCCcHHhHHhcCCccccCCCCCcCCcCC
Confidence 3466777777677664421 112234555555
No 35
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=39.85 E-value=7.3 Score=34.91 Aligned_cols=34 Identities=29% Similarity=0.487 Sum_probs=27.6
Q ss_pred CccCCC------CCCccccccCCCCCccccccCCCC---ccCCCCCCCCCC
Q 006619 551 GHLGPE------CANSCEALNGKKSNLICYKCGKEG---HFARRCGSNFKD 592 (638)
Q Consensus 551 GH~srD------CP~~r~~~s~~~s~~~CynCGe~G---HfArDCP~~~~~ 592 (638)
.|..+| ||..+ ...|-.||-.| |..+-||...+.
T Consensus 54 SH~LKd~~G~V~CPvLR--------~Y~CpiCGATGd~AHT~kYCP~~~~~ 96 (106)
T 3alr_A 54 SHYLKNRDGDVMCPYLR--------QYKCPLCGATGAKAHTKRFCPMVDKN 96 (106)
T ss_dssp SBCSBCTTSCBCCTTGG--------GCCCTTTCCCGGGCCCGGGCTTCGGG
T ss_pred cceeECCCCCCcCCCcc--------cccCCCCCCcCCcccceecCCCCCCc
Confidence 588887 98876 36899999888 999999988744
No 36
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=39.38 E-value=8.9 Score=26.48 Aligned_cols=18 Identities=28% Similarity=0.676 Sum_probs=14.5
Q ss_pred CccccCCCCCCCcccCCC
Q 006619 491 NFCLRCGDSGHDLSSCEG 508 (638)
Q Consensus 491 ~~C~rCG~~GH~akdCP~ 508 (638)
..|-.|...||+..+|+.
T Consensus 4 pYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 4 PYCEICEMFGHWATNCND 21 (26)
T ss_dssp CEETTTTEESSCGGGCCT
T ss_pred ccchHHHHhCcccccCCc
Confidence 578888888888888864
No 37
>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}
Probab=37.55 E-value=48 Score=26.36 Aligned_cols=20 Identities=40% Similarity=0.773 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCCCCCCCCCccccCCCC
Q 006619 473 EHLASDCPGTDQGNNLSSNFCLRCGDS 499 (638)
Q Consensus 473 GH~ArdCPe~~~~~~~~~~~C~rCG~~ 499 (638)
-|....||... ..|..|+..
T Consensus 34 ~H~~~~C~~r~-------v~C~~C~~~ 53 (76)
T 2yuc_A 34 AHLQHDCPKRR-------LKCEFCGCD 53 (76)
T ss_dssp TTTTTSCTTSC-------CCCSSSCCC
T ss_pred hhCHhhCCCcc-------eECCCCCCc
Confidence 45555666643 455555543
No 38
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A
Probab=34.16 E-value=25 Score=30.85 Aligned_cols=17 Identities=35% Similarity=0.796 Sum_probs=12.2
Q ss_pred CcccccCCCCccccccc
Q 006619 517 KIQCYICKSFGHLCCVN 533 (638)
Q Consensus 517 ~~tCy~CGs~GHl~C~~ 533 (638)
-+.|..|+...|..|..
T Consensus 26 Ll~C~~C~~~~H~~Cl~ 42 (112)
T 3v43_A 26 LISCADCGNSGHPSCLK 42 (112)
T ss_dssp CEECTTTCCEECHHHHT
T ss_pred ceEhhhcCCCCCCchhc
Confidence 45777788888877654
No 39
>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}
Probab=29.01 E-value=1e+02 Score=24.34 Aligned_cols=48 Identities=25% Similarity=0.481 Sum_probs=30.6
Q ss_pred CccccccccCCCCccc-cccCCC-------CCCCcCCCC-CccCcCcCCCC-------CCCCCCCCCC
Q 006619 432 NHTAATCKMQKQNKPC-FLCGSF-------KHRWKNCKQ-GQDCFINKGSE-------HLASDCPGTD 483 (638)
Q Consensus 432 GH~ArdCP~~~~~~~C-~~CG~~-------GH~a~dCP~-~~~CfnCge~G-------H~ArdCPe~~ 483 (638)
.|. ..||.. ...| ..|+.. .|...+||. ...|..|+... |. ..||...
T Consensus 7 ~H~-~~C~~~--~v~C~~~C~~~v~r~~l~~H~~~~C~~r~v~C~~C~~~~~~~~l~~H~-~~Cp~~~ 70 (76)
T 2yuc_A 7 GHL-NTCSFN--VIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDFSGEAYESHE-GMCPQES 70 (76)
T ss_dssp CCC-CCCCCS--CCBCTTCCSCBCCSSSSTTTTTTSCTTSCCCCSSSCCCCCHHHHHHTT-TSCTTSS
T ss_pred HHH-HHCCCc--ccCCCccccHHhhHhHHHhhCHhhCCCcceECCCCCCccCHHHHHHHH-hHCCCCc
Confidence 466 666653 3456 556532 577778887 35688887764 66 5777753
No 40
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=28.52 E-value=13 Score=33.32 Aligned_cols=18 Identities=33% Similarity=0.678 Sum_probs=11.9
Q ss_pred CccccCCCCC---CCcccCCC
Q 006619 491 NFCLRCGDSG---HDLSSCEG 508 (638)
Q Consensus 491 ~~C~rCG~~G---H~akdCP~ 508 (638)
..|-.||..| |..+-||.
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~ 92 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPM 92 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTT
T ss_pred ccCCCCCCcCCcccceecCCC
Confidence 4666676666 67777764
No 41
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A
Probab=27.52 E-value=1.6e+02 Score=25.60 Aligned_cols=33 Identities=18% Similarity=0.362 Sum_probs=18.3
Q ss_pred CcccccCCCCcccccccC--ccccccccccccCCC
Q 006619 517 KIQCYICKSFGHLCCVNS--SIIGLKQVSCYNCGQ 549 (638)
Q Consensus 517 ~~tCy~CGs~GHl~C~~~--s~~Cp~~vsCYnCGe 549 (638)
-..|-.|...=|+.|..+ .......|.|..|..
T Consensus 77 ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~ 111 (112)
T 3v43_A 77 MLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP 111 (112)
T ss_dssp CEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred eEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence 346666776667766432 222233577777753
No 42
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=25.18 E-value=23 Score=24.43 Aligned_cols=17 Identities=35% Similarity=0.833 Sum_probs=9.8
Q ss_pred cccccCCCCccCCCCCC
Q 006619 572 ICYKCGKEGHFARRCGS 588 (638)
Q Consensus 572 ~CynCGe~GHfArDCP~ 588 (638)
.|-+|..-||...+|+.
T Consensus 5 YCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 5 YCEICEMFGHWATNCND 21 (26)
T ss_dssp EETTTTEESSCGGGCCT
T ss_pred cchHHHHhCcccccCCc
Confidence 55556656666666644
No 43
>1g3j_B TCF3-CBD (catenin binding domain); beta-catenin,TCF-3, protein-protein complex, transcription; 2.10A {Xenopus laevis} SCOP: j.71.1.1 PDB: 1jpw_D 2gl7_B
Probab=24.28 E-value=19 Score=29.36 Aligned_cols=48 Identities=25% Similarity=0.350 Sum_probs=21.6
Q ss_pred CCeeEeeccCCCCCcceeeeeecCCccchhhhhhhccccChHHHHHHH
Q 006619 271 MPMVRVVGGNDGGNSFEVIDLCLSSTDDDKSVSGVSLERSVEDMGKAV 318 (638)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kas~ErDl~D~rea~ 318 (638)
||-+.--||.|=|..=|+|=+-=--.+..++...++.||||.|+|--|
T Consensus 1 MPq~~~~gGDdLga~DE~~~FkDEGeeeek~s~~~~~e~dL~d~KSSL 48 (61)
T 1g3j_B 1 MPQLNSGGGDELGANDELIRFKDEGEQEEKSPGEGSAEGDLADVKSSL 48 (61)
T ss_dssp -CCCSSCCEETTEECCCCCCCCCCCCCCC----------CCHHHHHHH
T ss_pred CCccCCCCccccCCccceeeccCccchhhhcccccccccchHHHHHhh
Confidence 566654455555555555544333345667777888999999998654
No 44
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=20.72 E-value=1.5e+02 Score=25.48 Aligned_cols=46 Identities=26% Similarity=0.476 Sum_probs=25.5
Q ss_pred CCCccccCCCCCCCcccCCCcCccCcccCcccccCCCCcccccccC--ccccccccccccCCC
Q 006619 489 SSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNS--SIIGLKQVSCYNCGQ 549 (638)
Q Consensus 489 ~~~~C~rCG~~GH~akdCP~~~~~~~~k~~tCy~CGs~GHl~C~~~--s~~Cp~~vsCYnCGe 549 (638)
....|..|+..|.+ ..|-.|...=|+.|..+ .......|.|..|..
T Consensus 24 n~~~C~vC~~~g~L---------------L~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~ 71 (88)
T 1fp0_A 24 SATICRVCQKPGDL---------------VMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 71 (88)
T ss_dssp SSSCCSSSCSSSCC---------------EECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred CCCcCcCcCCCCCE---------------EECCCCCCceecccCCCCCCCCcCCCcCCccccC
Confidence 44577777766532 24445555556655422 222334688888864
No 45
>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=20.48 E-value=99 Score=30.63 Aligned_cols=29 Identities=17% Similarity=0.406 Sum_probs=17.2
Q ss_pred ccccccccccCccccccccCCCCccccccCCCCCC
Q 006619 422 SETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHR 456 (638)
Q Consensus 422 ~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~GH~ 456 (638)
...|..|...|-.... ...|..|+..|..
T Consensus 38 ~~~C~~C~G~G~~~g~------~~~C~~C~G~G~~ 66 (248)
T 1nlt_A 38 QILCKECEGRGGKKGA------VKKCTSCNGQGIK 66 (248)
T ss_dssp EEECTTTTTCSBSTTT------CCCCTTSSSSSCE
T ss_pred EEeCCCCcCccCCCCC------CccCCCCCCCcEE
Confidence 4578888877643211 1467777766643
No 46
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}
Probab=20.25 E-value=41 Score=26.53 Aligned_cols=47 Identities=26% Similarity=0.653 Sum_probs=26.9
Q ss_pred CCccccCCCCCCCcccCCCcCccCcccCcccccCCCCcccccccC--ccccccccccccCCCCC
Q 006619 490 SNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNS--SIIGLKQVSCYNCGQSG 551 (638)
Q Consensus 490 ~~~C~rCG~~GH~akdCP~~~~~~~~k~~tCy~CGs~GHl~C~~~--s~~Cp~~vsCYnCGe~G 551 (638)
...|..|+..|. -..|-.|...=|+.|..+ .......|.|..|...|
T Consensus 11 ~~~C~vC~~~g~---------------ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~g 59 (61)
T 2l5u_A 11 QDYCEVCQQGGE---------------IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKEG 59 (61)
T ss_dssp CSSCTTTSCCSS---------------EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGGS
T ss_pred CCCCccCCCCCc---------------EEECCCCChhhhhhccCCCCCCCCCCceECccccccc
Confidence 456777776542 234555666557766543 22333468888876543
Done!