Query 023488
Match_columns 281
No_of_seqs 266 out of 1656
Neff 6.1
Searched_HMMs 29240
Date Mon Mar 25 07:40:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023488.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023488hhsearch_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 1.4E-26 4.7E-31 189.0 10.2 106 76-200 3-123 (124)
2 2lli_A Protein AIR2; RNA surve 99.8 3.9E-20 1.3E-24 150.7 10.2 88 101-209 3-91 (124)
3 3nyb_B Protein AIR2; polya RNA 99.5 3.9E-15 1.3E-19 113.6 4.1 62 129-203 6-67 (83)
4 3nyb_B Protein AIR2; polya RNA 99.5 9E-15 3.1E-19 111.6 3.1 61 103-175 6-66 (83)
5 2li8_A Protein LIN-28 homolog 99.3 7.7E-13 2.6E-17 98.8 4.1 43 156-203 25-67 (74)
6 2li8_A Protein LIN-28 homolog 99.3 8.3E-13 2.8E-17 98.6 3.7 42 129-175 25-66 (74)
7 2a51_A Nucleocapsid protein; s 99.1 5.3E-11 1.8E-15 78.0 3.9 37 79-119 2-38 (39)
8 2ec7_A GAG polyprotein (PR55GA 99.0 1.9E-10 6.6E-15 79.0 4.4 40 77-120 6-45 (49)
9 2bl6_A Nucleocapsid protein P1 99.0 1.3E-10 4.6E-15 75.2 3.1 35 79-119 2-36 (37)
10 2a51_A Nucleocapsid protein; s 99.0 2.1E-10 7.2E-15 75.1 4.0 36 131-172 3-38 (39)
11 2ec7_A GAG polyprotein (PR55GA 99.0 2.2E-10 7.7E-15 78.6 3.9 40 157-202 8-47 (49)
12 2bl6_A Nucleocapsid protein P1 99.0 1.6E-10 5.5E-15 74.8 2.6 34 158-199 3-36 (37)
13 2cqf_A RNA-binding protein LIN 99.0 5.4E-10 1.9E-14 80.7 4.7 40 78-120 8-47 (63)
14 1cl4_A Protein (GAG polyprotei 98.9 2.5E-10 8.5E-15 81.4 2.5 49 78-148 2-50 (60)
15 2ihx_A Nucleocapsid (NC) prote 98.9 3.7E-10 1.3E-14 80.9 3.4 46 157-203 6-51 (61)
16 2ihx_A Nucleocapsid (NC) prote 98.9 5E-10 1.7E-14 80.3 3.8 18 78-95 5-22 (61)
17 2cqf_A RNA-binding protein LIN 98.9 1.1E-09 3.6E-14 79.1 5.4 42 156-202 8-49 (63)
18 1cl4_A Protein (GAG polyprotei 98.9 3.2E-10 1.1E-14 80.8 2.6 46 158-203 4-51 (60)
19 1a1t_A Nucleocapsid protein; s 98.9 5.5E-10 1.9E-14 78.3 2.9 40 77-120 12-51 (55)
20 1a1t_A Nucleocapsid protein; s 98.9 1.2E-09 4.1E-14 76.5 3.3 39 103-146 13-51 (55)
21 3ts2_A Protein LIN-28 homolog 98.6 1.1E-08 3.7E-13 85.7 3.2 42 77-121 97-138 (148)
22 3ts2_A Protein LIN-28 homolog 98.6 8.8E-09 3E-13 86.3 2.4 44 156-204 98-141 (148)
23 1dsq_A Nucleic acid binding pr 97.7 1.7E-05 5.9E-10 47.1 2.0 20 77-96 2-21 (26)
24 1dsq_A Nucleic acid binding pr 97.7 2E-05 6.8E-10 46.8 2.2 20 183-202 3-22 (26)
25 1a6b_B Momulv, zinc finger pro 97.4 7.5E-05 2.6E-09 49.0 2.6 22 76-97 9-30 (40)
26 1nc8_A Nucleocapsid protein; H 97.4 6.5E-05 2.2E-09 45.7 1.7 19 78-96 7-25 (29)
27 1a6b_B Momulv, zinc finger pro 97.3 0.00016 5.5E-09 47.4 3.2 22 182-203 10-31 (40)
28 1nc8_A Nucleocapsid protein; H 97.2 0.00013 4.3E-09 44.4 1.6 20 183-202 7-26 (29)
29 1u6p_A GAG polyprotein; MLV, A 97.0 0.00034 1.2E-08 49.1 2.9 23 181-203 22-44 (56)
30 1u6p_A GAG polyprotein; MLV, A 97.0 0.00025 8.6E-09 49.8 2.1 23 75-97 21-43 (56)
31 2ysa_A Retinoblastoma-binding 96.9 0.00027 9.3E-09 49.4 1.6 21 76-96 6-26 (55)
32 2ysa_A Retinoblastoma-binding 96.6 0.00062 2.1E-08 47.6 1.3 21 183-203 8-28 (55)
33 3alr_A Nanos protein; zinc-fin 71.0 1.1 3.8E-05 34.8 0.6 19 129-147 72-93 (106)
34 2hqh_E Restin; beta/BETA struc 57.4 3.1 0.00011 24.4 0.6 18 184-201 5-22 (26)
35 2yuc_A TNF receptor-associated 55.1 20 0.00069 24.9 4.9 10 86-96 6-15 (76)
36 2yuc_A TNF receptor-associated 49.3 26 0.0009 24.3 4.7 18 111-135 6-24 (76)
37 3alr_A Nanos protein; zinc-fin 47.0 6.3 0.00022 30.6 1.1 20 184-203 73-95 (106)
38 2pzo_E CAP-Gly domain-containi 33.7 12 0.00041 24.3 0.6 19 183-201 21-39 (42)
39 2ysm_A Myeloid/lymphoid or mix 22.1 99 0.0034 23.1 4.2 33 102-147 7-39 (111)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.93 E-value=1.4e-26 Score=188.98 Aligned_cols=106 Identities=30% Similarity=0.733 Sum_probs=93.6
Q ss_pred CCccccccCCCCccCCCCCCccccccCccccccCCC-CCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCC
Q 023488 76 PGESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRR-GHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTK 154 (281)
Q Consensus 76 ~~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~-GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~ 154 (281)
+...||+|++.||++++||. ..||+|++. ||++++||.. ..||+|++.||++++||....
T Consensus 3 ~~~~C~~C~~~GH~~~~Cp~-------~~C~~Cg~~~gH~~~~C~~~-------~~C~~Cg~~GH~~~~C~~~~~----- 63 (124)
T 2lli_A 3 AAPKCNNCSQRGHLKKDCPH-------IICSYCGATDDHYSRHCPKA-------IQCSKCDEVGHYRSQCPHKWK----- 63 (124)
T ss_dssp CSSCCSSCSSSSCCTTTTTS-------CCCTTTCCTTTCCTTTGGGS-------SCSSSSSCSSSSTTTSCCCCC-----
T ss_pred CCCcccCCCCCCcCcccCcC-------CcCcCCCCcCCccCcccCCc-------ccccccCCCCCccccCcCccc-----
Confidence 45789999999999999998 489999999 9999999983 689999999999999998642
Q ss_pred ceeeeecCCCCcCCCCCCCCCCCCC--------------ccccccccccccCcCCCCCCC
Q 023488 155 FASCFICKEQGHLSKNCPQNAHGIY--------------PKGGCCKICGGVTHLARDCPN 200 (281)
Q Consensus 155 ~~~C~~Cg~~GH~a~dCp~~~~g~~--------------~~~~~C~~Cg~~GH~a~dCp~ 200 (281)
.+.||+|++.||++++||+.|..+. ...+.||+|++.|||++|||+
T Consensus 64 ~~~C~~Cg~~GH~~~~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 64 KVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp CCSSSSSCSSCCCTTTCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCC
T ss_pred CccCCCCCcCCcchhhCCCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcC
Confidence 3679999999999999999986421 135799999999999999996
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.82 E-value=3.9e-20 Score=150.69 Aligned_cols=88 Identities=30% Similarity=0.698 Sum_probs=78.2
Q ss_pred cCccccccCCCCCCCCCCCCCCcCccccccccccccc-CCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCCCCCC
Q 023488 101 KNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQA-GHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNAHGIY 179 (281)
Q Consensus 101 ~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~-GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~g~~ 179 (281)
....||+|++.||++++||. ..||+|++. ||++++||.. ..||+|++.||++++||..+.
T Consensus 3 ~~~~C~~C~~~GH~~~~Cp~--------~~C~~Cg~~~gH~~~~C~~~--------~~C~~Cg~~GH~~~~C~~~~~--- 63 (124)
T 2lli_A 3 AAPKCNNCSQRGHLKKDCPH--------IICSYCGATDDHYSRHCPKA--------IQCSKCDEVGHYRSQCPHKWK--- 63 (124)
T ss_dssp CSSCCSSCSSSSCCTTTTTS--------CCCTTTCCTTTCCTTTGGGS--------SCSSSSSCSSSSTTTSCCCCC---
T ss_pred CCCcccCCCCCCcCcccCcC--------CcCcCCCCcCCccCcccCCc--------ccccccCCCCCccccCcCccc---
Confidence 35789999999999999998 479999998 9999999975 469999999999999998763
Q ss_pred ccccccccccccCcCCCCCCCCCCCCCCCC
Q 023488 180 PKGGCCKICGGVTHLARDCPNKGIQGFTAS 209 (281)
Q Consensus 180 ~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~ 209 (281)
...|++|++.||+++|||+.|..|..+.
T Consensus 64 --~~~C~~Cg~~GH~~~~Cp~~~~~y~~~~ 91 (124)
T 2lli_A 64 --KVQCTLCKSKKHSKERCPSIWRAYILVD 91 (124)
T ss_dssp --CCSSSSSCSSCCCTTTCCCSTTSCCSSS
T ss_pred --CccCCCCCcCCcchhhCCCccccccccC
Confidence 3589999999999999999998766553
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.53 E-value=3.9e-15 Score=113.64 Aligned_cols=62 Identities=26% Similarity=0.467 Sum_probs=33.9
Q ss_pred cccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCC
Q 023488 129 KLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 129 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
..||+|++.||++++||+.+ .||+|+..||++++|+... ....||+||+.|||++|||+.+.
T Consensus 6 ~~C~~Cg~~GH~~~~Cp~~~--------rcY~c~~~gh~~~~c~~p~-----~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 6 VQCTLCKSKKHSKERCPSIW--------RAYILVDDNEKAKPKVLPF-----HTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp -CCSSSCCSSSCGGGCGGGT--------CCCCBC------------------CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred CCCCCCCCCCCccccCCCcc--------cccccccCCcccccccCCC-----CCCeecccCCCCcCcccCCcccc
Confidence 55777777777777776643 3777777777777776543 23578888888888888887664
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.49 E-value=9e-15 Score=111.58 Aligned_cols=61 Identities=21% Similarity=0.547 Sum_probs=24.7
Q ss_pred ccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCC
Q 023488 103 KICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNA 175 (281)
Q Consensus 103 ~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~ 175 (281)
+.|++|++.||++++||+. ..||+|+..||++++|+.+.. .+.||+|++.|||++|||+..
T Consensus 6 ~~C~~Cg~~GH~~~~Cp~~-------~rcY~c~~~gh~~~~c~~p~~-----~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 6 VQCTLCKSKKHSKERCPSI-------WRAYILVDDNEKAKPKVLPFH-----TIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp -CCSSSCCSSSCGGGCGGG-------TCCCCBC-------------C-----CCBCSSSSCBSSCGGGCSSCC
T ss_pred CCCCCCCCCCCccccCCCc-------ccccccccCCcccccccCCCC-----CCeecccCCCCcCcccCCccc
Confidence 3455555555555555441 245555555555555554321 245666666666666666554
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.32 E-value=7.7e-13 Score=98.78 Aligned_cols=43 Identities=26% Similarity=0.701 Sum_probs=31.1
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
..||+|++.||++++|+.... ...||+|++.||+++|||+...
T Consensus 25 ~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~~~ 67 (74)
T 2li8_A 25 DRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLKAQ 67 (74)
T ss_dssp SCCTTTCCSSSCTTTCSSCCC-----CCCCTTTCCTTSCGGGCTTGGG
T ss_pred CcccccCCcCcCcccCCCCCC-----CCccCCcCCcCCccCcCcCCcC
Confidence 567777777777777776432 2468888888888888887653
No 6
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.31 E-value=8.3e-13 Score=98.61 Aligned_cols=42 Identities=36% Similarity=0.869 Sum_probs=24.7
Q ss_pred cccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCC
Q 023488 129 KLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNA 175 (281)
Q Consensus 129 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~ 175 (281)
..||+|++.||++++|+.... ...||+|++.||++++||+..
T Consensus 25 ~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 25 DRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp SCCTTTCCSSSCTTTCSSCCC-----CCCCTTTCCTTSCGGGCTTGG
T ss_pred CcccccCCcCcCcccCCCCCC-----CCccCCcCCcCCccCcCcCCc
Confidence 456666666666666664321 145666666666666666543
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.10 E-value=5.3e-11 Score=77.96 Aligned_cols=37 Identities=30% Similarity=0.800 Sum_probs=22.3
Q ss_pred cccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCC
Q 023488 79 SCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCP 119 (281)
Q Consensus 79 ~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP 119 (281)
.||+|++.||++++||... ...|++|++.||++++||
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~----~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPR----QEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCC----CSSCTTTCCSSSCTTTSC
T ss_pred eeeccCCCCcccccCCCCC----CCccccCCCCCCccCcCc
Confidence 5677777777777776531 245555555555555555
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=99.02 E-value=1.9e-10 Score=78.97 Aligned_cols=40 Identities=28% Similarity=0.752 Sum_probs=26.7
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPS 120 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~ 120 (281)
...||+|++.||++++||... ...||+|++.||++++||.
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~~----~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAPR----RQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCSS----CCSCSSSCCSSCCGGGCCS
T ss_pred cCeeeecCCCCcChhhCcCCC----CCeeCcCCCcCCccCCCcC
Confidence 356777777777777777642 2456666666666666665
No 9
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.02 E-value=1.3e-10 Score=75.15 Aligned_cols=35 Identities=31% Similarity=0.953 Sum_probs=23.5
Q ss_pred cccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCC
Q 023488 79 SCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCP 119 (281)
Q Consensus 79 ~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP 119 (281)
.||+|++.||++++||.. ..|++|++.||++++||
T Consensus 2 ~C~~Cg~~GH~~~~C~~~------~~C~~Cg~~GH~a~~C~ 36 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAP------KVCFKCKQPGHFSKQCR 36 (37)
T ss_dssp CBSSSCCSSCCTTTSSCB------TTCSSCCCTTGGGGTTC
T ss_pred cccccCCCCcchhhCcCc------CeEccCCCcCCccCcCc
Confidence 477777777777777663 45666666666666665
No 10
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.01 E-value=2.1e-10 Score=75.05 Aligned_cols=36 Identities=39% Similarity=1.037 Sum_probs=17.8
Q ss_pred cccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCC
Q 023488 131 CYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCP 172 (281)
Q Consensus 131 C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp 172 (281)
||+|++.||++++||.+. ...||+|++.||++++||
T Consensus 3 C~~Cg~~GH~a~~C~~~~------~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 3 CFNCGKPGHTARMCRQPR------QEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp CTTTCCBSSCTTTCCSCC------CSSCTTTCCSSSCTTTSC
T ss_pred eeccCCCCcccccCCCCC------CCccccCCCCCCccCcCc
Confidence 455555555555554431 134555555555555554
No 11
>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=99.00 E-value=2.2e-10 Score=78.63 Aligned_cols=40 Identities=28% Similarity=0.798 Sum_probs=20.9
Q ss_pred eeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCC
Q 023488 157 SCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 157 ~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~ 202 (281)
.||+|++.||++++||... ...||+|++.||++++||+.+
T Consensus 8 ~C~~Cg~~GH~a~~C~~~~------~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 8 RCWNCGKEGHSARQCRAPR------RQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp BCTTTCCBTCCTTTCCCSS------CCSCSSSCCSSCCGGGCCSSC
T ss_pred eeeecCCCCcChhhCcCCC------CCeeCcCCCcCCccCCCcCCC
Confidence 4555555555555555432 124666666666666665543
No 12
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.99 E-value=1.6e-10 Score=74.79 Aligned_cols=34 Identities=32% Similarity=0.873 Sum_probs=17.2
Q ss_pred eeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCC
Q 023488 158 CFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCP 199 (281)
Q Consensus 158 C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp 199 (281)
||+|++.||++++||.. ..||+|++.||++++||
T Consensus 3 C~~Cg~~GH~~~~C~~~--------~~C~~Cg~~GH~a~~C~ 36 (37)
T 2bl6_A 3 CYNCGKPGHLSSQCRAP--------KVCFKCKQPGHFSKQCR 36 (37)
T ss_dssp BSSSCCSSCCTTTSSCB--------TTCSSCCCTTGGGGTTC
T ss_pred ccccCCCCcchhhCcCc--------CeEccCCCcCCccCcCc
Confidence 44555555555555442 14555555555555554
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=98.96 E-value=5.4e-10 Score=80.65 Aligned_cols=40 Identities=30% Similarity=0.815 Sum_probs=25.6
Q ss_pred ccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCC
Q 023488 78 ESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPS 120 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~ 120 (281)
..||+|++.||++++||... ....||+|++.||++++||.
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~~---~~~~C~~Cg~~GH~ar~Cp~ 47 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLPP---QPKKCHFCQSISHMVASCPL 47 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSCC---CSSCCTTTCCSSSCTTTCTG
T ss_pred CcccccCCCCcChhhCCCCC---CCCccCCcCCcCCccCcCCC
Confidence 46777777777777777532 13456666666666666665
No 14
>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=98.95 E-value=2.5e-10 Score=81.41 Aligned_cols=49 Identities=31% Similarity=0.608 Sum_probs=13.5
Q ss_pred ccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCC
Q 023488 78 ESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPL 148 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~ 148 (281)
..||+|++.||++++||....... . ......||+|++.||++++||...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~--------------~--------~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNA--------------E--------PKVPGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp -------------------------------------------------CCCSCSSCSSCSSCSTTCCCTT
T ss_pred CccccCCCCCcCHhhCcCCCCCcc--------------c--------cCCCcceeECCCCCCccCcCCCcc
Confidence 357888888888888877531100 0 001255666666667766666654
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.94 E-value=3.7e-10 Score=80.94 Aligned_cols=46 Identities=26% Similarity=0.749 Sum_probs=25.3
Q ss_pred eeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCC
Q 023488 157 SCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 157 ~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
.||+|++.||++++||...... .....||+|++.||+++|||+...
T Consensus 6 ~C~~Cg~~GH~a~~C~~~~~~~-~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 6 LCYTCGSPGHYQAQCPKKRKSG-NSRERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp BCSSSCCBTCCGGGCTTTTSSS-CCCSBCTTTCCBSSCGGGCCCCC-
T ss_pred cccccCCCCeehhhCcCCcCCC-CCCCeeCCCCCCCCCcCCCcCCCc
Confidence 4555555555555555443211 112467777777777777776654
No 16
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.93 E-value=5e-10 Score=80.28 Aligned_cols=18 Identities=28% Similarity=0.866 Sum_probs=9.6
Q ss_pred ccccccCCCCccCCCCCC
Q 023488 78 ESCFICKAKEHIAKHCPM 95 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~ 95 (281)
..||+|++.||++++||.
T Consensus 5 ~~C~~Cg~~GH~a~~C~~ 22 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPK 22 (61)
T ss_dssp TBCSSSCCBTCCGGGCTT
T ss_pred CcccccCCCCeehhhCcC
Confidence 345555555555555555
No 17
>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=98.93 E-value=1.1e-09 Score=79.13 Aligned_cols=42 Identities=26% Similarity=0.733 Sum_probs=26.7
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~ 202 (281)
..||+|++.||++++||.... ...||+|++.||+++|||+..
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSCCC-----SSCCTTTCCSSSCTTTCTGGG
T ss_pred CcccccCCCCcChhhCCCCCC-----CCccCCcCCcCCccCcCCCcc
Confidence 446666666666666665421 246777777777777777654
No 18
>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=98.93 E-value=3.2e-10 Score=80.81 Aligned_cols=46 Identities=37% Similarity=0.768 Sum_probs=16.7
Q ss_pred eeecCCCCcCCCCCCCCCCCCC--ccccccccccccCcCCCCCCCCCC
Q 023488 158 CFICKEQGHLSKNCPQNAHGIY--PKGGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 158 C~~Cg~~GH~a~dCp~~~~g~~--~~~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
||+|++.||++++||....+.. .....||+|++.||+++|||+...
T Consensus 4 Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 4 CFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp -------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred cccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 5555555555555544321100 023468888888888888887653
No 19
>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=98.90 E-value=5.5e-10 Score=78.26 Aligned_cols=40 Identities=38% Similarity=0.862 Sum_probs=25.5
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPS 120 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~ 120 (281)
...||+|++.||++++||... ...||+|++.||++++||.
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~~----~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAPR----KKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSCS----CCBCTTTCCBSSCGGGCSS
T ss_pred CcceeeeCCCCcChhhcCCCC----CCEeCCCCCcCCccCCCcC
Confidence 356777777777777777642 2456666666666666655
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=98.85 E-value=1.2e-09 Score=76.48 Aligned_cols=39 Identities=36% Similarity=0.979 Sum_probs=18.5
Q ss_pred ccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCC
Q 023488 103 KICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQ 146 (281)
Q Consensus 103 ~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~ 146 (281)
..||+|++.||++++||.+. ...||+|++.||++++||.
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~~-----~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAPR-----KKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSCS-----CCBCTTTCCBSSCGGGCSS
T ss_pred cceeeeCCCCcChhhcCCCC-----CCEeCCCCCcCCccCCCcC
Confidence 34555555555555554431 1344444444444444443
No 21
>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=98.64 E-value=1.1e-08 Score=85.68 Aligned_cols=42 Identities=33% Similarity=0.856 Sum_probs=24.9
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSK 121 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~ 121 (281)
...||+|++.||++++||.... ...||+|++.||++++||+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~---~~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQ---PKKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCC---CCCCTTTCCSSCCGGGCTTT
T ss_pred CCcccEeCCccchhhhCCCCCC---CCcccccCCcCCEeccCcCC
Confidence 3467777777777777766321 24555555555555555553
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=98.63 E-value=8.8e-09 Score=86.26 Aligned_cols=44 Identities=27% Similarity=0.698 Sum_probs=28.8
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCCC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGIQ 204 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~~ 204 (281)
..||+|++.||++++|+.... ...||+|++.||+++|||+..+.
T Consensus 98 ~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp CCCTTTCCSSCCGGGCCSCCC-----CCCCTTTCCSSCCGGGCTTTTC-
T ss_pred CcccEeCCccchhhhCCCCCC-----CCcccccCCcCCEeccCcCCCCC
Confidence 457777777777777766432 24677777777877788776543
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=97.67 E-value=1.7e-05 Score=47.12 Aligned_cols=20 Identities=35% Similarity=0.898 Sum_probs=14.4
Q ss_pred CccccccCCCCccCCCCCCc
Q 023488 77 GESCFICKAKEHIAKHCPMK 96 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~ 96 (281)
+..||+||+.||++++||..
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC
T ss_pred CCeeEeCCCCCcccccCCCc
Confidence 35677777777777777764
No 24
>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=97.66 E-value=2e-05 Score=46.84 Aligned_cols=20 Identities=35% Similarity=0.845 Sum_probs=13.6
Q ss_pred cccccccccCcCCCCCCCCC
Q 023488 183 GCCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~~~ 202 (281)
..||+||+.||+++|||...
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~ 22 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC-
T ss_pred CeeEeCCCCCcccccCCCcc
Confidence 45777777777777777653
No 25
>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=97.41 E-value=7.5e-05 Score=48.96 Aligned_cols=22 Identities=45% Similarity=0.881 Sum_probs=17.3
Q ss_pred CCccccccCCCCccCCCCCCcc
Q 023488 76 PGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 76 ~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
....||+||+.||++++||...
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCeeeECCCCCcchhhCcCCc
Confidence 3568888888888888888854
No 26
>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=97.36 E-value=6.5e-05 Score=45.68 Aligned_cols=19 Identities=26% Similarity=0.695 Sum_probs=13.7
Q ss_pred ccccccCCCCccCCCCCCc
Q 023488 78 ESCFICKAKEHIAKHCPMK 96 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~ 96 (281)
+.||+||+.||++++|+..
T Consensus 7 ~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 7 IRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CBCTTTSCBSSCGGGCCSS
T ss_pred CEEEECCccccCHhHCccc
Confidence 5677777777777777664
No 27
>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=97.30 E-value=0.00016 Score=47.37 Aligned_cols=22 Identities=36% Similarity=0.729 Sum_probs=14.7
Q ss_pred ccccccccccCcCCCCCCCCCC
Q 023488 182 GGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 182 ~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
...||+|++.||+++|||....
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 3467777777777777776553
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=97.18 E-value=0.00013 Score=44.38 Aligned_cols=20 Identities=35% Similarity=0.552 Sum_probs=13.9
Q ss_pred cccccccccCcCCCCCCCCC
Q 023488 183 GCCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~~~ 202 (281)
..||+|++.||++++|+.+.
T Consensus 7 ~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 7 IRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CBCTTTSCBSSCGGGCCSSS
T ss_pred CEEEECCccccCHhHCcccc
Confidence 46777777777777777654
No 29
>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=97.03 E-value=0.00034 Score=49.09 Aligned_cols=23 Identities=35% Similarity=0.705 Sum_probs=17.3
Q ss_pred cccccccccccCcCCCCCCCCCC
Q 023488 181 KGGCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 181 ~~~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
....||+||+.|||++|||....
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~~ 44 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKPR 44 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCCC
T ss_pred CCCcceeCCCCCcccccCcCCcc
Confidence 34578888888888888887654
No 30
>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=97.02 E-value=0.00025 Score=49.77 Aligned_cols=23 Identities=43% Similarity=0.813 Sum_probs=18.7
Q ss_pred CCCccccccCCCCccCCCCCCcc
Q 023488 75 KPGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 75 ~~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
.+...||+||+.||++++||...
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCC
T ss_pred CCCCcceeCCCCCcccccCcCCc
Confidence 44578999999999999998864
No 31
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=96.93 E-value=0.00027 Score=49.42 Aligned_cols=21 Identities=38% Similarity=0.931 Sum_probs=16.7
Q ss_pred CCccccccCCCCccCCCCCCc
Q 023488 76 PGESCFICKAKEHIAKHCPMK 96 (281)
Q Consensus 76 ~~~~Cf~Cg~~GH~a~~Cp~~ 96 (281)
++..||+||++||++++||..
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSGG
T ss_pred CCCccccCCCcCcccccCCCC
Confidence 467888888888888888854
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=96.57 E-value=0.00062 Score=47.56 Aligned_cols=21 Identities=33% Similarity=0.773 Sum_probs=15.5
Q ss_pred cccccccccCcCCCCCCCCCC
Q 023488 183 GCCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~~~~ 203 (281)
..||+||+.||++++||....
T Consensus 8 ~~C~kCGk~GH~~k~Cp~~~~ 28 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCPTNGD 28 (55)
T ss_dssp CCCTTTCCTTSCGGGCSGGGC
T ss_pred CccccCCCcCcccccCCCCCC
Confidence 468888888888888875543
No 33
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=70.98 E-value=1.1 Score=34.84 Aligned_cols=19 Identities=37% Similarity=0.786 Sum_probs=10.3
Q ss_pred cccccccccC---CCCCCCCCC
Q 023488 129 KLCYNCGQAG---HSLAQCPQP 147 (281)
Q Consensus 129 ~~C~~Cg~~G---H~~~~Cp~~ 147 (281)
..|-.||..| |+.+-||..
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~~ 93 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPMV 93 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTTC
T ss_pred ccCCCCCCcCCcccceecCCCC
Confidence 4555555555 555555543
No 34
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=57.39 E-value=3.1 Score=24.37 Aligned_cols=18 Identities=33% Similarity=0.840 Sum_probs=13.4
Q ss_pred ccccccccCcCCCCCCCC
Q 023488 184 CCKICGGVTHLARDCPNK 201 (281)
Q Consensus 184 ~C~~Cg~~GH~a~dCp~~ 201 (281)
.|-+|...||...+|.+.
T Consensus 5 YCe~CE~FGH~t~~C~d~ 22 (26)
T 2hqh_E 5 YCEICEMFGHWATNCNDD 22 (26)
T ss_dssp EETTTTEESSCGGGCCTT
T ss_pred cchHHHHhCcccccCCcc
Confidence 677777788888777654
No 35
>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=55.06 E-value=20 Score=24.95 Aligned_cols=10 Identities=20% Similarity=0.763 Sum_probs=5.6
Q ss_pred CCccCCCCCCc
Q 023488 86 KEHIAKHCPMK 96 (281)
Q Consensus 86 ~GH~a~~Cp~~ 96 (281)
..|+ ..|+..
T Consensus 6 ~~H~-~~C~~~ 15 (76)
T 2yuc_A 6 SGHL-NTCSFN 15 (76)
T ss_dssp SCCC-CCCCCS
T ss_pred HHHH-HHCCCc
Confidence 3565 566664
No 36
>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=49.27 E-value=26 Score=24.30 Aligned_cols=18 Identities=28% Similarity=0.707 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCCcCccccccc-cccc
Q 023488 111 RGHTLKNCPSKNDETESTKLC-YNCG 135 (281)
Q Consensus 111 ~GH~~~~CP~~~~~~~~~~~C-~~Cg 135 (281)
..|. ..|+.. ...| ..|+
T Consensus 6 ~~H~-~~C~~~------~v~C~~~C~ 24 (76)
T 2yuc_A 6 SGHL-NTCSFN------VIPCPNRCP 24 (76)
T ss_dssp SCCC-CCCCCS------CCBCTTCCS
T ss_pred HHHH-HHCCCc------ccCCCcccc
Confidence 3566 567664 2556 5665
No 37
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=47.00 E-value=6.3 Score=30.58 Aligned_cols=20 Identities=35% Similarity=0.768 Sum_probs=12.1
Q ss_pred ccccccccC---cCCCCCCCCCC
Q 023488 184 CCKICGGVT---HLARDCPNKGI 203 (281)
Q Consensus 184 ~C~~Cg~~G---H~a~dCp~~~~ 203 (281)
.|..||..| |..+-||....
T Consensus 73 ~CpiCGATGd~AHT~kYCP~~~~ 95 (106)
T 3alr_A 73 KCPLCGATGAKAHTKRFCPMVDK 95 (106)
T ss_dssp CCTTTCCCGGGCCCGGGCTTCGG
T ss_pred cCCCCCCcCCcccceecCCCCCC
Confidence 566666666 66666665553
No 38
>2pzo_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskeleton associated protein, P150glued; 2.60A {Homo sapiens} PDB: 3e2u_E
Probab=33.68 E-value=12 Score=24.28 Aligned_cols=19 Identities=32% Similarity=0.768 Sum_probs=12.9
Q ss_pred cccccccccCcCCCCCCCC
Q 023488 183 GCCKICGGVTHLARDCPNK 201 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~~ 201 (281)
.+|-+|--.||+..+|++.
T Consensus 21 pYCd~CEvFGH~t~~Cndd 39 (42)
T 2pzo_E 21 PYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp CEETTTTEESSCGGGCCTT
T ss_pred cccccccccCcccccCCcc
Confidence 3677777777777777653
No 39
>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=22.05 E-value=99 Score=23.15 Aligned_cols=33 Identities=33% Similarity=0.734 Sum_probs=21.1
Q ss_pred CccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCC
Q 023488 102 NKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQP 147 (281)
Q Consensus 102 ~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 147 (281)
...|..|+..|.... ...|..|+...|.. |-..
T Consensus 7 ~~~C~~C~~~g~~~~-----------ll~C~~C~~~~H~~--Cl~~ 39 (111)
T 2ysm_A 7 GANCAVCDSPGDLLD-----------QFFCTTCGQHYHGM--CLDI 39 (111)
T ss_dssp CSCBTTTCCCCCTTT-----------SEECSSSCCEECTT--TTTC
T ss_pred CCCCcCCCCCCCCcC-----------CeECCCCCCCcChH--HhCC
Confidence 457888887764311 26788888877764 5443
Done!