Query psy16574
Match_columns 152
No_of_seqs 222 out of 1384
Neff 7.7
Searched_HMMs 29240
Date Fri Aug 16 16:29:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16574.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/16574hhsearch_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 100.0 1.8E-30 6E-35 183.9 10.6 109 37-149 5-124 (124)
2 2lli_A Protein AIR2; RNA surve 100.0 1.8E-28 6E-33 173.6 9.5 99 6-117 4-124 (124)
3 3nyb_B Protein AIR2; polya RNA 99.7 1.4E-18 4.8E-23 114.5 2.7 62 78-151 6-67 (83)
4 3nyb_B Protein AIR2; polya RNA 99.6 3.5E-16 1.2E-20 103.0 2.7 59 58-118 7-66 (83)
5 2li8_A Protein LIN-28 homolog 99.5 4.7E-15 1.6E-19 95.6 3.8 44 98-151 24-67 (74)
6 2li8_A Protein LIN-28 homolog 99.5 1.5E-14 5E-19 93.3 4.5 60 15-74 2-64 (74)
7 2a51_A Nucleocapsid protein; s 99.4 3.3E-13 1.1E-17 76.6 3.3 39 7-54 1-39 (39)
8 2ec7_A GAG polyprotein (PR55GA 99.3 5.6E-13 1.9E-17 79.3 3.7 42 99-151 7-48 (49)
9 2a51_A Nucleocapsid protein; s 99.3 1.6E-12 5.6E-17 73.6 4.3 38 100-148 2-39 (39)
10 2bl6_A Nucleocapsid protein P1 99.3 1.3E-12 4.3E-17 73.3 2.9 36 8-54 2-37 (37)
11 2ec7_A GAG polyprotein (PR55GA 99.3 2.2E-12 7.5E-17 76.7 3.8 41 6-55 6-46 (49)
12 1a1t_A Nucleocapsid protein; s 99.3 1.5E-12 5.2E-17 79.1 2.7 42 99-151 13-54 (55)
13 2bl6_A Nucleocapsid protein P1 99.3 2.3E-12 8E-17 72.2 3.0 36 100-148 2-37 (37)
14 2ihx_A Nucleocapsid (NC) prote 99.2 3.4E-12 1.2E-16 79.2 3.2 47 99-151 5-51 (61)
15 2cqf_A RNA-binding protein LIN 99.2 7.9E-12 2.7E-16 78.0 4.6 41 7-55 8-48 (63)
16 2cqf_A RNA-binding protein LIN 99.2 1.1E-11 3.8E-16 77.4 5.0 49 36-84 7-57 (63)
17 1cl4_A Protein (GAG polyprotei 99.2 8.3E-12 2.9E-16 77.1 2.3 20 131-150 31-50 (60)
18 1a1t_A Nucleocapsid protein; s 99.2 2.4E-11 8.2E-16 73.7 3.8 16 38-53 14-29 (55)
19 2ihx_A Nucleocapsid (NC) prote 99.1 4.3E-11 1.5E-15 74.2 3.6 45 7-55 5-49 (61)
20 1cl4_A Protein (GAG polyprotei 99.1 3.8E-11 1.3E-15 74.1 2.8 21 98-118 30-50 (60)
21 3ts2_A Protein LIN-28 homolog 98.9 5.2E-10 1.8E-14 80.9 2.8 40 36-75 97-138 (148)
22 3ts2_A Protein LIN-28 homolog 98.9 5.9E-10 2E-14 80.6 2.8 39 79-117 99-138 (148)
23 1dsq_A Nucleic acid binding pr 98.3 1.8E-07 6.3E-12 48.0 1.9 21 131-151 3-23 (26)
24 1dsq_A Nucleic acid binding pr 98.2 5.2E-07 1.8E-11 46.3 2.1 21 6-26 2-22 (26)
25 1nc8_A Nucleocapsid protein; H 98.1 9.1E-07 3.1E-11 46.5 1.6 22 130-151 6-27 (29)
26 1a6b_B Momulv, zinc finger pro 98.0 2.8E-06 9.5E-11 47.9 2.4 24 4-27 8-31 (40)
27 1nc8_A Nucleocapsid protein; H 97.9 2.4E-06 8.1E-11 44.8 1.2 21 6-26 6-26 (29)
28 1a6b_B Momulv, zinc finger pro 97.9 4.4E-06 1.5E-10 47.1 2.1 21 130-150 10-30 (40)
29 1u6p_A GAG polyprotein; MLV, A 97.7 1.1E-05 3.8E-10 48.7 1.6 20 6-25 23-42 (56)
30 1u6p_A GAG polyprotein; MLV, A 97.6 2.2E-05 7.4E-10 47.4 1.6 22 129-150 22-43 (56)
31 2ysa_A Retinoblastoma-binding 97.2 0.00012 4E-09 44.0 1.2 18 7-24 8-25 (55)
32 2ysa_A Retinoblastoma-binding 97.0 0.00018 6.3E-09 43.1 0.9 16 132-147 9-24 (55)
33 2hqh_E Restin; beta/BETA struc 84.6 0.32 1.1E-05 24.3 0.8 19 131-149 4-22 (26)
34 2yuc_A TNF receptor-associated 81.4 4.1 0.00014 24.6 5.4 10 50-59 10-19 (76)
35 2yuc_A TNF receptor-associated 77.5 4 0.00014 24.7 4.4 39 16-65 7-53 (76)
36 3alr_A Nanos protein; zinc-fin 69.5 2.1 7.3E-05 28.5 1.7 26 93-118 66-94 (106)
37 3alr_A Nanos protein; zinc-fin 62.0 3.8 0.00013 27.2 1.8 25 72-96 66-93 (106)
38 2pzo_E CAP-Gly domain-containi 56.0 3.8 0.00013 22.6 0.8 21 130-150 20-40 (42)
39 3e2u_E CAP-Gly domain-containi 40.8 9.6 0.00033 21.0 0.9 21 130-150 20-40 (42)
40 2d9k_A FLN29 gene product; zin 37.2 3.6 0.00012 24.9 -1.4 9 17-25 8-16 (75)
41 2ysm_A Myeloid/lymphoid or mix 23.9 75 0.0026 20.4 3.3 82 4-117 5-86 (111)
42 2ll1_A U1-TRTX-SP1A; toxin; NM 21.2 44 0.0015 16.7 1.3 12 140-151 3-14 (33)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.97 E-value=1.8e-30 Score=183.93 Aligned_cols=109 Identities=28% Similarity=0.719 Sum_probs=82.7
Q ss_pred ccceecCCCCcCcccCCCCCCcccccCCC-CcccccCCCCCCcccccCCCCCCCCCCCCCCC-CcCCcccCCCCcCCCCC
Q psy16574 37 IVCYKCNNYGHFARECATESVTCYNCSGQ-GHVAKDCTVKSSIICYNCNSSGHFARNCPNDS-SKRCYACHQAGHMAKEC 114 (152)
Q Consensus 37 ~~C~~Cg~~GH~~~~Cp~~~~~C~~Cg~~-GH~~~~Cp~~~~~~C~~Cg~~GH~~~~Cp~~~-~~~C~~C~~~GH~~~~C 114 (152)
+.||+|+++||++++||+. .||+|++. ||++++||. ...|++|++.||++++||..+ .+.|++|++.||+++||
T Consensus 5 ~~C~~C~~~GH~~~~Cp~~--~C~~Cg~~~gH~~~~C~~--~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~C 80 (124)
T 2lli_A 5 PKCNNCSQRGHLKKDCPHI--ICSYCGATDDHYSRHCPK--AIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERC 80 (124)
T ss_dssp SCCSSCSSSSCCTTTTTSC--CCTTTCCTTTCCTTTGGG--SSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTC
T ss_pred CcccCCCCCCcCcccCcCC--cCcCCCCcCCccCcccCC--cccccccCCCCCccccCcCcccCccCCCCCcCCcchhhC
Confidence 4677777777777777776 77777777 777777776 467888888888888887754 46799999999999999
Q ss_pred CCCCCCCCCC---------ccccccccccccccccccCCCCCCC
Q psy16574 115 PGQTAGKSPE---------PVVDMSLTCYVCGHQGHLSYDCKLV 149 (152)
Q Consensus 115 p~~~~~~~~~---------~~~~~~~~C~~Cg~~GH~~~~C~~~ 149 (152)
|+.|..+... ......++||+|++.|||++|||+.
T Consensus 81 p~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~~ 124 (124)
T 2lli_A 81 PSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEK 124 (124)
T ss_dssp CCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCCC
T ss_pred CCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcCC
Confidence 9888643211 1223468999999999999999973
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.95 E-value=1.8e-28 Score=173.60 Aligned_cols=99 Identities=30% Similarity=0.810 Sum_probs=90.4
Q ss_pred ccccccccccCccCCCCCCCCCCCCCCCCCCccceecCCC-CcCcccCCCCCCcccccCCCCcccccCCCC-CCcccccC
Q psy16574 6 TIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNY-GHFARECATESVTCYNCSGQGHVAKDCTVK-SSIICYNC 83 (152)
Q Consensus 6 ~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~-GH~~~~Cp~~~~~C~~Cg~~GH~~~~Cp~~-~~~~C~~C 83 (152)
.+.||+|+++||++++||.. +||+|+++ ||++++||.. ..||+|++.||++++||.. ....|++|
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~~------------~C~~Cg~~~gH~~~~C~~~-~~C~~Cg~~GH~~~~C~~~~~~~~C~~C 70 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPHI------------ICSYCGATDDHYSRHCPKA-IQCSKCDEVGHYRSQCPHKWKKVQCTLC 70 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTSC------------CCTTTCCTTTCCTTTGGGS-SCSSSSSCSSSSTTTSCCCCCCCSSSSS
T ss_pred CCcccCCCCCCcCcccCcCC------------cCcCCCCcCCccCcccCCc-ccccccCCCCCccccCcCcccCccCCCC
Confidence 46799999999999999985 69999999 9999999986 6899999999999999985 35789999
Q ss_pred CCCCCCCCCCCCCC--------------------CcCCcccCCCCcCCCCCCCC
Q psy16574 84 NSSGHFARNCPNDS--------------------SKRCYACHQAGHMAKECPGQ 117 (152)
Q Consensus 84 g~~GH~~~~Cp~~~--------------------~~~C~~C~~~GH~~~~Cp~~ 117 (152)
++.||++++||..| .+.||+|++.|||++|||+.
T Consensus 71 g~~GH~~~~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~~ 124 (124)
T 2lli_A 71 KSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEK 124 (124)
T ss_dssp CSSCCCTTTCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCCC
T ss_pred CcCCcchhhCCCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcCC
Confidence 99999999999864 36899999999999999973
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.72 E-value=1.4e-18 Score=114.50 Aligned_cols=62 Identities=31% Similarity=0.566 Sum_probs=29.0
Q ss_pred cccccCCCCCCCCCCCCCCCCcCCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCCCcC
Q psy16574 78 IICYNCNSSGHFARNCPNDSSKRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 78 ~~C~~Cg~~GH~~~~Cp~~~~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
+.|++|++.||++++||+.| .||+|++.||++++|+.+. ..++||+||+.|||++|||+.+.
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 45666666666666666542 4666666666666665431 23566666666666666666554
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.59 E-value=3.5e-16 Score=103.00 Aligned_cols=59 Identities=20% Similarity=0.451 Sum_probs=29.8
Q ss_pred cccccCCCCcccccCCCCCCcccccCCCCCCCCCCCCCC-CCcCCcccCCCCcCCCCCCCCC
Q psy16574 58 TCYNCSGQGHVAKDCTVKSSIICYNCNSSGHFARNCPND-SSKRCYACHQAGHMAKECPGQT 118 (152)
Q Consensus 58 ~C~~Cg~~GH~~~~Cp~~~~~~C~~Cg~~GH~~~~Cp~~-~~~~C~~C~~~GH~~~~Cp~~~ 118 (152)
.||+|++.||++++||+ ...||+|+..||++++|+.+ ..+.||+|++.|||++|||+.+
T Consensus 7 ~C~~Cg~~GH~~~~Cp~--~~rcY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 7 QCTLCKSKKHSKERCPS--IWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CCSSSCCSSSCGGGCGG--GTCCCCBC-------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred CCCCCCCCCCccccCCC--cccccccccCCcccccccCCCCCCeecccCCCCcCcccCCccc
Confidence 45555555555555554 23456666666666666443 2467888888888888888775
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.53 E-value=4.7e-15 Score=95.63 Aligned_cols=44 Identities=32% Similarity=0.675 Sum_probs=32.9
Q ss_pred CcCCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCCCcC
Q psy16574 98 SKRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 98 ~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
...||+|++.||++++||... ..+.||+|++.||+++|||+..+
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~~~----------~~~~C~~Cg~~GH~ar~Cp~~~~ 67 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKLPP----------QPKKCHFCQSISHMVASCPLKAQ 67 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSSCC----------CCCCCTTTCCTTSCGGGCTTGGG
T ss_pred CCcccccCCcCcCcccCCCCC----------CCCccCCcCCcCCccCcCcCCcC
Confidence 357888888888888887642 13578888888888888887653
No 6
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.50 E-value=1.5e-14 Score=93.32 Aligned_cols=60 Identities=22% Similarity=0.496 Sum_probs=31.8
Q ss_pred cCccCCCCCCCCCCCCC-CCCCCccceecCCCCcCcccCCCC--CCcccccCCCCcccccCCC
Q psy16574 15 FGHYQYSCPQKSSADAR-GDKVGIVCYKCNNYGHFARECATE--SVTCYNCSGQGHVAKDCTV 74 (152)
Q Consensus 15 ~GH~~~~Cp~~~~~~~~-~~~~~~~C~~Cg~~GH~~~~Cp~~--~~~C~~Cg~~GH~~~~Cp~ 74 (152)
.|||++||+.++..... .....+.||+|++.||++++||.. ...||+|++.||++++||.
T Consensus 2 ~gh~~rdc~~~~~~~~~~~~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~ 64 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQKRRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPL 64 (74)
T ss_dssp ----------CCCCCCCSCCSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCGGGCTT
T ss_pred CccccCcCCCCCcCccccccCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCccCcCcC
Confidence 59999999998643211 112356788888888888888853 3567777777777777765
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.36 E-value=3.3e-13 Score=76.56 Aligned_cols=39 Identities=28% Similarity=0.674 Sum_probs=31.0
Q ss_pred cccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCC
Q psy16574 7 IQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECAT 54 (152)
Q Consensus 7 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~ 54 (152)
+.||+|++.||++++||.+. ...||+|++.||++++||+
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 46889999999999998763 2578888888888888874
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=99.35 E-value=5.6e-13 Score=79.30 Aligned_cols=42 Identities=33% Similarity=0.854 Sum_probs=29.9
Q ss_pred cCCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCCCcC
Q psy16574 99 KRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 99 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
..||+|++.||++++||... ...||+|++.||+++|||+.+.
T Consensus 7 ~~C~~Cg~~GH~a~~C~~~~-----------~~~C~~Cg~~GH~~~~C~~~~~ 48 (49)
T 2ec7_A 7 IRCWNCGKEGHSARQCRAPR-----------RQGCWKCGKTGHVMAKCPERQA 48 (49)
T ss_dssp CBCTTTCCBTCCTTTCCCSS-----------CCSCSSSCCSSCCGGGCCSSCC
T ss_pred CeeeecCCCCcChhhCcCCC-----------CCeeCcCCCcCCccCCCcCCCC
Confidence 56777777777777777652 2467888888888888877664
No 9
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.32 E-value=1.6e-12 Score=73.65 Aligned_cols=38 Identities=29% Similarity=0.781 Sum_probs=21.6
Q ss_pred CCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCC
Q psy16574 100 RCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKL 148 (152)
Q Consensus 100 ~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~ 148 (152)
.||+|++.||++++||... ...||+|++.||+++|||+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~-----------~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPR-----------QEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCC-----------CSSCTTTCCSSSCTTTSCC
T ss_pred eeeccCCCCcccccCCCCC-----------CCccccCCCCCCccCcCcC
Confidence 4556666666666665432 2356666666666666653
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.29 E-value=1.3e-12 Score=73.29 Aligned_cols=36 Identities=42% Similarity=1.068 Sum_probs=26.7
Q ss_pred ccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCC
Q psy16574 8 QCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECAT 54 (152)
Q Consensus 8 ~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~ 54 (152)
.||+|+++||++++||.+ ..||+|+++||++++||+
T Consensus 2 ~C~~Cg~~GH~~~~C~~~-----------~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAP-----------KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSCB-----------TTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcCc-----------CeEccCCCcCCccCcCcC
Confidence 577888888888888764 367777777777777764
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=99.28 E-value=2.2e-12 Score=76.70 Aligned_cols=41 Identities=32% Similarity=0.767 Sum_probs=27.3
Q ss_pred ccccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCCC
Q psy16574 6 TIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATE 55 (152)
Q Consensus 6 ~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 55 (152)
.+.||+|++.||++++||.+. ...||+|++.||++++||..
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~~---------~~~C~~Cg~~GH~~~~C~~~ 46 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAPR---------RQGCWKCGKTGHVMAKCPER 46 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCSS---------CCSCSSSCCSSCCGGGCCSS
T ss_pred cCeeeecCCCCcChhhCcCCC---------CCeeCcCCCcCCccCCCcCC
Confidence 346777777777777777653 23577777777777777654
No 12
>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=99.27 E-value=1.5e-12 Score=79.11 Aligned_cols=42 Identities=36% Similarity=0.902 Sum_probs=29.8
Q ss_pred cCCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCCCcC
Q psy16574 99 KRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 99 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
..||+|++.||++++||... ...||+|++.||+++|||+.++
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~~-----------~~~C~~Cg~~GH~~~~C~~~~~ 54 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAPR-----------KKGCWKCGKEGHQMKDCTERQA 54 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSCS-----------CCBCTTTCCBSSCGGGCSSSCC
T ss_pred cceeeeCCCCcChhhcCCCC-----------CCEeCCCCCcCCccCCCcCcCC
Confidence 46777777777777776642 3468888888888888877665
No 13
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.26 E-value=2.3e-12 Score=72.17 Aligned_cols=36 Identities=33% Similarity=1.034 Sum_probs=24.1
Q ss_pred CCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCC
Q psy16574 100 RCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKL 148 (152)
Q Consensus 100 ~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~ 148 (152)
.||+|++.||++++||.. ..||+|++.||++++||+
T Consensus 2 ~C~~Cg~~GH~~~~C~~~-------------~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAP-------------KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSCB-------------TTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcCc-------------CeEccCCCcCCccCcCcC
Confidence 466677777777777653 367777777777777764
No 14
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.24 E-value=3.4e-12 Score=79.20 Aligned_cols=47 Identities=26% Similarity=0.688 Sum_probs=28.6
Q ss_pred cCCcccCCCCcCCCCCCCCCCCCCCCccccccccccccccccccCCCCCCCcC
Q psy16574 99 KRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 99 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
..||+|++.||++++||...... ...+.||+|++.||+++|||+.+.
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~~~------~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRKSG------NSRERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTSSS------CCCSBCTTTCCBSSCGGGCCCCC-
T ss_pred CcccccCCCCeehhhCcCCcCCC------CCCCeeCCCCCCCCCcCCCcCCCc
Confidence 45666666666666666653111 113567777777777777777654
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=99.23 E-value=7.9e-12 Score=78.05 Aligned_cols=41 Identities=24% Similarity=0.591 Sum_probs=20.9
Q ss_pred cccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCCC
Q psy16574 7 IQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATE 55 (152)
Q Consensus 7 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 55 (152)
..||+|+++||++++||.... .+.||+|+++||++++||..
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~~~--------~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLPPQ--------PKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSCCC--------SSCCTTTCCSSSCTTTCTGG
T ss_pred CcccccCCCCcChhhCCCCCC--------CCccCCcCCcCCccCcCCCc
Confidence 445566666666655554321 13455555555555555543
No 16
>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=99.23 E-value=1.1e-11 Score=77.35 Aligned_cols=49 Identities=27% Similarity=0.577 Sum_probs=32.0
Q ss_pred CccceecCCCCcCcccCCCC--CCcccccCCCCcccccCCCCCCcccccCC
Q psy16574 36 GIVCYKCNNYGHFARECATE--SVTCYNCSGQGHVAKDCTVKSSIICYNCN 84 (152)
Q Consensus 36 ~~~C~~Cg~~GH~~~~Cp~~--~~~C~~Cg~~GH~~~~Cp~~~~~~C~~Cg 84 (152)
.+.||+|+++||++++||.. ...||+|++.||++++||.......+.++
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~~~~~~~~g 57 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKAQQGPSAQG 57 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTGGGCSCCCCSC
T ss_pred CCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCCccccCCccCC
Confidence 35788888888888888863 35677777777777777664333444443
No 17
>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=99.17 E-value=8.3e-12 Score=77.11 Aligned_cols=20 Identities=25% Similarity=0.471 Sum_probs=11.5
Q ss_pred ccccccccccccCCCCCCCc
Q psy16574 131 LTCYVCGHQGHLSYDCKLVQ 150 (152)
Q Consensus 131 ~~C~~Cg~~GH~~~~C~~~~ 150 (152)
..||+|++.||+++|||+..
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 31 GLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp CSCSSCSSCSSCSTTCCCTT
T ss_pred cceeECCCCCCccCcCCCcc
Confidence 45666666666666665543
No 18
>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=99.15 E-value=2.4e-11 Score=73.74 Aligned_cols=16 Identities=38% Similarity=1.169 Sum_probs=6.9
Q ss_pred cceecCCCCcCcccCC
Q psy16574 38 VCYKCNNYGHFARECA 53 (152)
Q Consensus 38 ~C~~Cg~~GH~~~~Cp 53 (152)
.||+|++.||++++||
T Consensus 14 ~C~~Cg~~GH~a~~C~ 29 (55)
T 1a1t_A 14 KCFNCGKEGHIAKNCR 29 (55)
T ss_dssp BCTTTCCBSSCGGGCS
T ss_pred ceeeeCCCCcChhhcC
Confidence 3444444444444444
No 19
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.11 E-value=4.3e-11 Score=74.17 Aligned_cols=45 Identities=38% Similarity=0.798 Sum_probs=24.1
Q ss_pred cccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCCC
Q psy16574 7 IQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATE 55 (152)
Q Consensus 7 ~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 55 (152)
..||+|++.||++++||..... +...+.||+|+++||++++||+.
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~~----~~~~~~C~~Cg~~GH~ar~C~~~ 49 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRKS----GNSRERCQLCNGMGHNAKQCRKR 49 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTSS----SCCCSBCTTTCCBSSCGGGCCCC
T ss_pred CcccccCCCCeehhhCcCCcCC----CCCCCeeCCCCCCCCCcCCCcCC
Confidence 4566666666666666665311 00123455555555555555544
No 20
>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=99.09 E-value=3.8e-11 Score=74.09 Aligned_cols=21 Identities=33% Similarity=0.714 Sum_probs=17.1
Q ss_pred CcCCcccCCCCcCCCCCCCCC
Q psy16574 98 SKRCYACHQAGHMAKECPGQT 118 (152)
Q Consensus 98 ~~~C~~C~~~GH~~~~Cp~~~ 118 (152)
...||+|++.||+++|||+..
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCTT
T ss_pred CcceeECCCCCCccCcCCCcc
Confidence 367888888888888888775
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=98.90 E-value=5.2e-10 Score=80.91 Aligned_cols=40 Identities=33% Similarity=0.810 Sum_probs=29.2
Q ss_pred CccceecCCCCcCcccCCCC--CCcccccCCCCcccccCCCC
Q psy16574 36 GIVCYKCNNYGHFARECATE--SVTCYNCSGQGHVAKDCTVK 75 (152)
Q Consensus 36 ~~~C~~Cg~~GH~~~~Cp~~--~~~C~~Cg~~GH~~~~Cp~~ 75 (152)
...||+|++.||++++||.. ...||+|++.||++++||..
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTT
T ss_pred CCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCC
Confidence 35678887778888888763 35788888888888888763
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=98.89 E-value=5.9e-10 Score=80.61 Aligned_cols=39 Identities=36% Similarity=0.877 Sum_probs=19.3
Q ss_pred ccccCCCCCCCCCCCCCCC-CcCCcccCCCCcCCCCCCCC
Q psy16574 79 ICYNCNSSGHFARNCPNDS-SKRCYACHQAGHMAKECPGQ 117 (152)
Q Consensus 79 ~C~~Cg~~GH~~~~Cp~~~-~~~C~~C~~~GH~~~~Cp~~ 117 (152)
.||+|++.||++++||... ...||+|++.||++++||+.
T Consensus 99 ~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 99 RCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp CCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTT
T ss_pred cccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCC
Confidence 4555555555555555421 23455555555555555544
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=98.34 E-value=1.8e-07 Score=47.99 Aligned_cols=21 Identities=38% Similarity=0.947 Sum_probs=13.9
Q ss_pred ccccccccccccCCCCCCCcC
Q psy16574 131 LTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 131 ~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
..||+|++.||+++|||+...
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 467777777777777776543
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=98.23 E-value=5.2e-07 Score=46.26 Aligned_cols=21 Identities=24% Similarity=0.689 Sum_probs=16.2
Q ss_pred ccccccccccCccCCCCCCCC
Q psy16574 6 TIQCYNCFDFGHYQYSCPQKS 26 (152)
Q Consensus 6 ~~~C~~C~~~GH~~~~Cp~~~ 26 (152)
.+.||+|++.||++++||...
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 467888888888888888764
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=98.11 E-value=9.1e-07 Score=46.47 Aligned_cols=22 Identities=27% Similarity=0.931 Sum_probs=18.1
Q ss_pred cccccccccccccCCCCCCCcC
Q psy16574 130 SLTCYVCGHQGHLSYDCKLVQK 151 (152)
Q Consensus 130 ~~~C~~Cg~~GH~~~~C~~~~~ 151 (152)
.+.||||++.||+++||+.+++
T Consensus 6 ~~~C~nCgk~GH~ar~C~~prk 27 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPRR 27 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSSS
T ss_pred CCEEEECCccccCHhHCccccc
Confidence 4679999999999999987754
No 26
>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=98.01 E-value=2.8e-06 Score=47.92 Aligned_cols=24 Identities=33% Similarity=0.726 Sum_probs=18.1
Q ss_pred CCccccccccccCccCCCCCCCCC
Q psy16574 4 TSTIQCYNCFDFGHYQYSCPQKSS 27 (152)
Q Consensus 4 ~~~~~C~~C~~~GH~~~~Cp~~~~ 27 (152)
...+.||+|++.|||+++||....
T Consensus 8 ~~~~~C~~Cgk~GH~ardCP~~~~ 31 (40)
T 1a6b_B 8 LDRDQCAYCKEKGHWAKDCPKKPR 31 (40)
T ss_dssp CCSSSCSSSCCTTCCTTSCSSSCC
T ss_pred CCCCeeeECCCCCcchhhCcCCcc
Confidence 345678888888888888888653
No 27
>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=97.95 E-value=2.4e-06 Score=44.85 Aligned_cols=21 Identities=33% Similarity=0.735 Sum_probs=14.5
Q ss_pred ccccccccccCccCCCCCCCC
Q psy16574 6 TIQCYNCFDFGHYQYSCPQKS 26 (152)
Q Consensus 6 ~~~C~~C~~~GH~~~~Cp~~~ 26 (152)
.+.||||+++||++++||.+.
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 456777777777777777653
No 28
>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=97.92 E-value=4.4e-06 Score=47.09 Aligned_cols=21 Identities=29% Similarity=0.616 Sum_probs=14.9
Q ss_pred cccccccccccccCCCCCCCc
Q psy16574 130 SLTCYVCGHQGHLSYDCKLVQ 150 (152)
Q Consensus 130 ~~~C~~Cg~~GH~~~~C~~~~ 150 (152)
...||+|++.||+++|||+..
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSC
T ss_pred CCeeeECCCCCcchhhCcCCc
Confidence 456777777777777777654
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=97.71 E-value=1.1e-05 Score=48.71 Aligned_cols=20 Identities=40% Similarity=0.881 Sum_probs=10.9
Q ss_pred ccccccccccCccCCCCCCC
Q psy16574 6 TIQCYNCFDFGHYQYSCPQK 25 (152)
Q Consensus 6 ~~~C~~C~~~GH~~~~Cp~~ 25 (152)
.+.||+|++.|||+++||..
T Consensus 23 ~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTC
T ss_pred CCcceeCCCCCcccccCcCC
Confidence 34555555555555555554
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=97.59 E-value=2.2e-05 Score=47.44 Aligned_cols=22 Identities=27% Similarity=0.543 Sum_probs=17.3
Q ss_pred ccccccccccccccCCCCCCCc
Q psy16574 129 MSLTCYVCGHQGHLSYDCKLVQ 150 (152)
Q Consensus 129 ~~~~C~~Cg~~GH~~~~C~~~~ 150 (152)
....||+|++.|||++|||+..
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCC
T ss_pred CCCcceeCCCCCcccccCcCCc
Confidence 3467888888888888888754
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=97.15 E-value=0.00012 Score=44.00 Aligned_cols=18 Identities=39% Similarity=1.028 Sum_probs=10.0
Q ss_pred cccccccccCccCCCCCC
Q psy16574 7 IQCYNCFDFGHYQYSCPQ 24 (152)
Q Consensus 7 ~~C~~C~~~GH~~~~Cp~ 24 (152)
..||+|+++||++++||.
T Consensus 8 ~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp CCCTTTCCTTSCGGGCSG
T ss_pred CccccCCCcCcccccCCC
Confidence 345555555555555553
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=96.97 E-value=0.00018 Score=43.13 Aligned_cols=16 Identities=44% Similarity=1.194 Sum_probs=9.9
Q ss_pred cccccccccccCCCCC
Q psy16574 132 TCYVCGHQGHLSYDCK 147 (152)
Q Consensus 132 ~C~~Cg~~GH~~~~C~ 147 (152)
.||+|++.||++.+||
T Consensus 9 ~C~kCGk~GH~~k~Cp 24 (55)
T 2ysa_A 9 TCFRCGKPGHYIKNCP 24 (55)
T ss_dssp CCTTTCCTTSCGGGCS
T ss_pred ccccCCCcCcccccCC
Confidence 5666666666666666
No 33
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=84.55 E-value=0.32 Score=24.26 Aligned_cols=19 Identities=26% Similarity=0.583 Sum_probs=12.9
Q ss_pred ccccccccccccCCCCCCC
Q psy16574 131 LTCYVCGHQGHLSYDCKLV 149 (152)
Q Consensus 131 ~~C~~Cg~~GH~~~~C~~~ 149 (152)
.+|-+|...||-..||+..
T Consensus 4 pYCe~CE~FGH~t~~C~d~ 22 (26)
T 2hqh_E 4 PYCEICEMFGHWATNCNDD 22 (26)
T ss_dssp CEETTTTEESSCGGGCCTT
T ss_pred ccchHHHHhCcccccCCcc
Confidence 4677777777777777654
No 34
>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=81.36 E-value=4.1 Score=24.63 Aligned_cols=10 Identities=20% Similarity=0.840 Sum_probs=4.3
Q ss_pred ccCCCCCCcc
Q psy16574 50 RECATESVTC 59 (152)
Q Consensus 50 ~~Cp~~~~~C 59 (152)
..||.....|
T Consensus 10 ~~C~~~~v~C 19 (76)
T 2yuc_A 10 NTCSFNVIPC 19 (76)
T ss_dssp CCCCCSCCBC
T ss_pred HHCCCcccCC
Confidence 4444443444
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=77.46 E-value=4 Score=24.68 Aligned_cols=39 Identities=26% Similarity=0.728 Sum_probs=24.8
Q ss_pred CccCCCCCCCCCCCCCCCCCCccc-eecCCC-------CcCcccCCCCCCcccccCCC
Q psy16574 16 GHYQYSCPQKSSADARGDKVGIVC-YKCNNY-------GHFARECATESVTCYNCSGQ 65 (152)
Q Consensus 16 GH~~~~Cp~~~~~~~~~~~~~~~C-~~Cg~~-------GH~~~~Cp~~~~~C~~Cg~~ 65 (152)
.|+ ..||... +.| ..|+.. -|...+||.+...|..|+..
T Consensus 7 ~H~-~~C~~~~----------v~C~~~C~~~v~r~~l~~H~~~~C~~r~v~C~~C~~~ 53 (76)
T 2yuc_A 7 GHL-NTCSFNV----------IPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCD 53 (76)
T ss_dssp CCC-CCCCCSC----------CBCTTCCSCBCCSSSSTTTTTTSCTTSCCCCSSSCCC
T ss_pred HHH-HHCCCcc----------cCCCccccHHhhHhHHHhhCHhhCCCcceECCCCCCc
Confidence 577 7788763 678 677532 46666677666666666553
No 36
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=69.52 E-value=2.1 Score=28.45 Aligned_cols=26 Identities=31% Similarity=0.724 Sum_probs=15.8
Q ss_pred CCCCCCcCCcccCCCC---cCCCCCCCCC
Q psy16574 93 CPNDSSKRCYACHQAG---HMAKECPGQT 118 (152)
Q Consensus 93 Cp~~~~~~C~~C~~~G---H~~~~Cp~~~ 118 (152)
||.++...|..|+..| |..+-||...
T Consensus 66 CPvLR~Y~CpiCGATGd~AHT~kYCP~~~ 94 (106)
T 3alr_A 66 CPYLRQYKCPLCGATGAKAHTKRFCPMVD 94 (106)
T ss_dssp CTTGGGCCCTTTCCCGGGCCCGGGCTTCG
T ss_pred CCCcccccCCCCCCcCCcccceecCCCCC
Confidence 6665555666666666 6666666553
No 37
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=61.96 E-value=3.8 Score=27.24 Aligned_cols=25 Identities=32% Similarity=0.681 Sum_probs=15.7
Q ss_pred CCCCCCcccccCCCCC---CCCCCCCCC
Q psy16574 72 CTVKSSIICYNCNSSG---HFARNCPND 96 (152)
Q Consensus 72 Cp~~~~~~C~~Cg~~G---H~~~~Cp~~ 96 (152)
||..+...|-.|+..| |..+-||..
T Consensus 66 CPvLR~Y~CpiCGATGd~AHT~kYCP~~ 93 (106)
T 3alr_A 66 CPYLRQYKCPLCGATGAKAHTKRFCPMV 93 (106)
T ss_dssp CTTGGGCCCTTTCCCGGGCCCGGGCTTC
T ss_pred CCCcccccCCCCCCcCCcccceecCCCC
Confidence 6655556666666666 666666654
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=55.97 E-value=3.8 Score=22.60 Aligned_cols=21 Identities=24% Similarity=0.551 Sum_probs=14.9
Q ss_pred cccccccccccccCCCCCCCc
Q psy16574 130 SLTCYVCGHQGHLSYDCKLVQ 150 (152)
Q Consensus 130 ~~~C~~Cg~~GH~~~~C~~~~ 150 (152)
..+|-+|.-.||...+|+..+
T Consensus 20 RpYCd~CEvFGH~t~~Cndde 40 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCNDDE 40 (42)
T ss_dssp -CEETTTTEESSCGGGCCTTC
T ss_pred CcccccccccCcccccCCccc
Confidence 457888888888888886543
No 39
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=40.79 E-value=9.6 Score=21.03 Aligned_cols=21 Identities=24% Similarity=0.551 Sum_probs=15.7
Q ss_pred cccccccccccccCCCCCCCc
Q psy16574 130 SLTCYVCGHQGHLSYDCKLVQ 150 (152)
Q Consensus 130 ~~~C~~Cg~~GH~~~~C~~~~ 150 (152)
+.+|-+|.-.||...+|+..+
T Consensus 20 RpYCe~CEVFGH~t~eC~dde 40 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCNDDE 40 (42)
T ss_dssp CCEETTTTEESSCGGGCCTTC
T ss_pred CcccccceecccccccCCccc
Confidence 567888888888888887653
No 40
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=37.17 E-value=3.6 Score=24.86 Aligned_cols=9 Identities=33% Similarity=0.870 Sum_probs=4.8
Q ss_pred ccCCCCCCC
Q psy16574 17 HYQYSCPQK 25 (152)
Q Consensus 17 H~~~~Cp~~ 25 (152)
|+...||.+
T Consensus 8 H~~~~c~~r 16 (75)
T 2d9k_A 8 HEETECPLR 16 (75)
T ss_dssp CCCCCCCCC
T ss_pred hCcccCCCc
Confidence 555555554
No 41
>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=23.93 E-value=75 Score=20.44 Aligned_cols=82 Identities=24% Similarity=0.454 Sum_probs=42.3
Q ss_pred CCccccccccccCccCCCCCCCCCCCCCCCCCCccceecCCCCcCcccCCCCCCcccccCCCCcccccCCCCCCcccccC
Q psy16574 4 TSTIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATESVTCYNCSGQGHVAKDCTVKSSIICYNC 83 (152)
Q Consensus 4 ~~~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~C~~Cg~~GH~~~~Cp~~~~~~C~~C 83 (152)
....+|..|+..|.+. . -+.|..|.+..|.. |-..... ..--....|+. =..|..|
T Consensus 5 ~~~~~C~~C~~~g~~~-----~----------ll~C~~C~~~~H~~--Cl~~~~~-----~~~~~~W~C~~--C~~C~~C 60 (111)
T 2ysm_A 5 SSGANCAVCDSPGDLL-----D----------QFFCTTCGQHYHGM--CLDIAVT-----PLKRAGWQCPE--CKVCQNC 60 (111)
T ss_dssp CCCSCBTTTCCCCCTT-----T----------SEECSSSCCEECTT--TTTCCCC-----TTTSTTCCCTT--TCCCTTT
T ss_pred CCCCCCcCCCCCCCCc-----C----------CeECCCCCCCcChH--HhCCccc-----cccccCccCCc--CCccccc
Confidence 4556777777776431 1 25677777766664 3322000 00001223433 2367778
Q ss_pred CCCCCCCCCCCCCCCcCCcccCCCCcCCCCCCCC
Q psy16574 84 NSSGHFARNCPNDSSKRCYACHQAGHMAKECPGQ 117 (152)
Q Consensus 84 g~~GH~~~~Cp~~~~~~C~~C~~~GH~~~~Cp~~ 117 (152)
++.+.. ...+.|..|...=|+. |-++
T Consensus 61 ~~~~~~------~~ll~Cd~C~~~yH~~--Cl~p 86 (111)
T 2ysm_A 61 KQSGED------SKMLVCDTCDKGYHTF--CLQP 86 (111)
T ss_dssp CCCSCC------TTEEECSSSCCEEEGG--GSSS
T ss_pred CccCCC------CCeeECCCCCcHHhHH--hcCC
Confidence 777642 1136777787776763 5443
No 42
>2ll1_A U1-TRTX-SP1A; toxin; NMR {Theraphosidae}
Probab=21.23 E-value=44 Score=16.75 Aligned_cols=12 Identities=33% Similarity=0.523 Sum_probs=7.5
Q ss_pred cccCCCCCCCcC
Q psy16574 140 GHLSYDCKLVQK 151 (152)
Q Consensus 140 GH~~~~C~~~~~ 151 (152)
||+-+.||+.+.
T Consensus 3 ghlhdpcpndrp 14 (33)
T 2ll1_A 3 GHLHDPCPNDRP 14 (33)
T ss_dssp BCSSCBCTTCBT
T ss_pred cccCCCCCCCCC
Confidence 566666766553
Done!