Query 024887
Match_columns 261
No_of_seqs 294 out of 1925
Neff 6.9
Searched_HMMs 29240
Date Mon Mar 25 16:09:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024887.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024887hhsearch_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 1.7E-25 6E-30 178.4 12.6 115 102-230 5-123 (124)
2 2lli_A Protein AIR2; RNA surve 99.9 9.6E-26 3.3E-30 179.9 10.7 78 44-122 4-85 (124)
3 3nyb_B Protein AIR2; polya RNA 99.6 1.9E-16 6.4E-21 117.5 3.1 39 215-253 27-67 (83)
4 3nyb_B Protein AIR2; polya RNA 99.5 3.7E-15 1.3E-19 110.5 3.6 59 127-185 5-66 (83)
5 2li8_A Protein LIN-28 homolog 99.5 2.9E-14 1E-18 103.5 4.6 65 174-254 2-68 (74)
6 2a51_A Nucleocapsid protein; s 99.3 8.9E-13 3E-17 84.0 3.3 38 213-250 1-39 (39)
7 2li8_A Protein LIN-28 homolog 99.3 2.8E-12 9.7E-17 93.0 4.5 62 110-185 2-66 (74)
8 2ec7_A GAG polyprotein (PR55GA 99.3 2.8E-12 9.6E-17 85.7 4.0 43 211-253 5-48 (49)
9 1a1t_A Nucleocapsid protein; s 99.2 2.8E-12 9.4E-17 87.7 2.7 44 210-253 10-54 (55)
10 2bl6_A Nucleocapsid protein P1 99.2 3.5E-12 1.2E-16 80.3 3.0 36 214-250 2-37 (37)
11 2ihx_A Nucleocapsid (NC) prote 99.2 9.6E-12 3.3E-16 86.9 3.6 43 212-254 4-52 (61)
12 2cqf_A RNA-binding protein LIN 99.1 2.9E-11 9.8E-16 85.0 4.4 43 211-253 6-50 (63)
13 1cl4_A Protein (GAG polyprotei 99.1 1.5E-11 5.1E-16 85.5 2.2 40 214-253 3-51 (60)
14 2bl6_A Nucleocapsid protein P1 99.1 3.1E-11 1E-15 75.9 3.4 36 148-183 2-37 (37)
15 2a51_A Nucleocapsid protein; s 99.1 7.7E-11 2.6E-15 74.9 4.2 36 148-183 2-39 (39)
16 1a1t_A Nucleocapsid protein; s 99.1 5.2E-11 1.8E-15 81.3 2.8 44 38-81 6-51 (55)
17 2cqf_A RNA-binding protein LIN 99.1 1.4E-10 4.8E-15 81.4 4.9 38 147-184 8-48 (63)
18 2ec7_A GAG polyprotein (PR55GA 99.0 3.9E-10 1.3E-14 75.2 4.4 38 44-81 6-45 (49)
19 2ihx_A Nucleocapsid (NC) prote 98.9 4.2E-10 1.4E-14 78.4 3.8 39 147-185 5-50 (61)
20 1cl4_A Protein (GAG polyprotei 98.9 1.2E-09 4.2E-14 75.7 3.2 18 46-63 3-20 (60)
21 3ts2_A Protein LIN-28 homolog 98.8 1.9E-09 6.5E-14 88.1 4.6 44 212-255 97-142 (148)
22 3ts2_A Protein LIN-28 homolog 98.6 1.8E-08 6.2E-13 82.2 3.7 40 147-186 98-140 (148)
23 1dsq_A Nucleic acid binding pr 97.9 6E-06 2.1E-10 47.5 2.0 18 213-230 3-20 (26)
24 1dsq_A Nucleic acid binding pr 97.8 8E-06 2.7E-10 47.0 2.2 20 44-63 2-21 (26)
25 1nc8_A Nucleocapsid protein; H 97.8 1E-05 3.5E-10 47.7 2.4 22 211-232 5-26 (29)
26 1a6b_B Momulv, zinc finger pro 97.8 1.4E-05 4.7E-10 50.7 2.9 25 39-63 5-29 (40)
27 1a6b_B Momulv, zinc finger pro 97.6 2.6E-05 8.8E-10 49.4 2.6 21 211-231 9-29 (40)
28 1nc8_A Nucleocapsid protein; H 97.6 2E-05 7E-10 46.4 1.8 20 44-63 6-25 (29)
29 1u6p_A GAG polyprotein; MLV, A 97.4 0.00013 4.5E-09 49.6 3.6 25 39-63 18-42 (56)
30 1u6p_A GAG polyprotein; MLV, A 97.3 0.00015 5E-09 49.3 3.2 21 211-231 22-42 (56)
31 2ysa_A Retinoblastoma-binding 97.0 0.00017 5.7E-09 48.9 1.1 17 213-229 8-24 (55)
32 2ysa_A Retinoblastoma-binding 96.5 0.0013 4.4E-08 44.5 2.2 22 231-252 6-27 (55)
33 2hqh_E Restin; beta/BETA struc 81.2 0.34 1.2E-05 27.3 0.2 20 165-184 3-22 (26)
34 2pzo_E CAP-Gly domain-containi 63.9 1.6 5.5E-05 27.3 0.2 21 164-184 19-39 (42)
35 3e2u_E CAP-Gly domain-containi 50.8 3.9 0.00013 25.6 0.4 20 165-184 20-39 (42)
36 2yuc_A TNF receptor-associated 50.3 41 0.0014 22.6 5.8 34 220-254 32-72 (76)
37 3alr_A Nanos protein; zinc-fin 37.2 9.3 0.00032 28.6 0.6 43 211-253 35-95 (106)
38 2ysm_A Myeloid/lymphoid or mix 24.4 86 0.0029 22.9 4.2 29 44-76 7-35 (111)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.93 E-value=1.7e-25 Score=178.41 Aligned_cols=115 Identities=27% Similarity=0.668 Sum_probs=77.0
Q ss_pred CccccCCCCCcCCCCCCCCCCCCCCCcccccccCC-CCcccccCCCcccCCCCCCCcccCCCCCC---CCCCCCCcCCCC
Q 024887 102 GICHTCGKAGHRARDCTAPPLPPGDLRLCNNCYKQ-GHFAADCTNDKACNNCRKTGHLARDCPND---PICNLCNVSGHV 177 (261)
Q Consensus 102 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~C~~Cg~~-GH~a~dCp~~~~C~~Cg~~GH~~~~Cp~~---~~C~~C~~~GH~ 177 (261)
..||+|++.||++++||+. .||+|++. ||++.+||+...|++|++.||++++||+. +.||+|++.||+
T Consensus 5 ~~C~~C~~~GH~~~~Cp~~--------~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~ 76 (124)
T 2lli_A 5 PKCNNCSQRGHLKKDCPHI--------ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHS 76 (124)
T ss_dssp SCCSSCSSSSCCTTTTTSC--------CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCC
T ss_pred CcccCCCCCCcCcccCcCC--------cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCcccCccCCCCCcCCcc
Confidence 3566666666666666652 47777776 77777777767788888888888888864 689999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccCcCCCcccccCCC
Q 024887 178 ARHCPKSGGLGDRYSGGSGARGSGGSGARGGGYRDIVCRNCQQLGHMSRDCMG 230 (261)
Q Consensus 178 a~~Cp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~GH~~~dC~~ 230 (261)
+++||+.|...........+ .. ...+...++||+|+++|||++|||+
T Consensus 77 ~~~Cp~~~~~y~~~~~~~~~-----~~-~~~~~~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 77 KERCPSIWRAYILVDDNEKA-----KP-KVLPFHTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp TTTCCCSTTSCCSSSCCCCC-----CC-SCCCCCCCCTTTTSSSCTTTTTSCC
T ss_pred hhhCCCccccccccCccccc-----cc-cccCCCCCCcCCCCCCCcCcccCcC
Confidence 99999988632211100000 00 0111345678888888888877774
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.93 E-value=9.6e-26 Score=179.92 Aligned_cols=78 Identities=31% Similarity=0.830 Sum_probs=72.2
Q ss_pred cccccccCcCCCCCCCCCCCcccCCCCCC-CCccccccchhhcccCCCCCCCCCCCCCC---CccccCCCCCcCCCCCCC
Q 024887 44 SNLCKNCKRPGHFARECPNVAICHNCGLP-GHIASECTTKALCWNCREPGHMAGNCPNE---GICHTCGKAGHRARDCTA 119 (261)
Q Consensus 44 ~~~C~~Cg~~GH~a~~Cp~~~~C~~Cg~~-GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~~---~~C~~Cg~~GH~~~~Cp~ 119 (261)
.+.||+|+++||++++||+. +||+|++. ||++.+||....||+|+++||++++||+. ..||+|++.||++++||+
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~~-~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~Cp~ 82 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPHI-ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERCPS 82 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTSC-CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTCCC
T ss_pred CCcccCCCCCCcCcccCcCC-cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCcccCccCCCCCcCCcchhhCCC
Confidence 56799999999999999996 89999998 99999999988999999999999999975 689999999999999998
Q ss_pred CCC
Q 024887 120 PPL 122 (261)
Q Consensus 120 ~~~ 122 (261)
.|.
T Consensus 83 ~~~ 85 (124)
T 2lli_A 83 IWR 85 (124)
T ss_dssp STT
T ss_pred ccc
Confidence 875
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.61 E-value=1.9e-16 Score=117.50 Aligned_cols=39 Identities=26% Similarity=0.529 Sum_probs=18.1
Q ss_pred cccCcCCCcccccCCCC--CceeeccCCCCcccCCCCCCCC
Q 024887 215 CRNCQQLGHMSRDCMGP--LMVCHNCGGRGHLAYECPSGRF 253 (261)
Q Consensus 215 C~~C~~~GH~~~dC~~~--~~~C~~Cg~~GH~~~~C~~~~~ 253 (261)
||+|++.||++++|+.+ .+.||+||+.|||++|||+.+.
T Consensus 27 cY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 27 AYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp CCCBC-------------CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred ccccccCCcccccccCCCCCCeecccCCCCcCcccCCcccc
Confidence 66666666666666432 4667777777777777776654
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.52 E-value=3.7e-15 Score=110.52 Aligned_cols=59 Identities=17% Similarity=0.258 Sum_probs=38.1
Q ss_pred CcccccccCCCCcccccCCCcccCCCCCCCcccCCCCCC---CCCCCCCcCCCCCCCCCCCC
Q 024887 127 LRLCNNCYKQGHFAADCTNDKACNNCRKTGHLARDCPND---PICNLCNVSGHVARHCPKSG 185 (261)
Q Consensus 127 ~~~C~~Cg~~GH~a~dCp~~~~C~~Cg~~GH~~~~Cp~~---~~C~~C~~~GH~a~~Cp~~~ 185 (261)
.+.|++|++.||++.+||+...||+|++.||++++|+.. +.||+|++.||+++|||+..
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGTCCCCBC-------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred cCCCCCCCCCCCccccCCCcccccccccCCcccccccCCCCCCeecccCCCCcCcccCCccc
Confidence 567888888888888888877888888888888888643 67888888888888888764
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.47 E-value=2.9e-14 Score=103.48 Aligned_cols=65 Identities=26% Similarity=0.442 Sum_probs=41.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccCcCCCcccccCCC--CCceeeccCCCCcccCCCCCC
Q 024887 174 SGHVARHCPKSGGLGDRYSGGSGARGSGGSGARGGGYRDIVCRNCQQLGHMSRDCMG--PLMVCHNCGGRGHLAYECPSG 251 (261)
Q Consensus 174 ~GH~a~~Cp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~GH~~~dC~~--~~~~C~~Cg~~GH~~~~C~~~ 251 (261)
.||+++||++...... .......+.||+|+++||++++|+. ..+.||+|++.||++++||+.
T Consensus 2 ~gh~~rdc~~~~~~~~----------------~~~~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSM----------------QKRRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp ----------CCCCCC----------------CSCCSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCGGGCTTG
T ss_pred CccccCcCCCCCcCcc----------------ccccCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCccCcCcCC
Confidence 5899999998732110 0011345789999999999999996 368999999999999999987
Q ss_pred CCC
Q 024887 252 RFL 254 (261)
Q Consensus 252 ~~~ 254 (261)
.+.
T Consensus 66 ~~~ 68 (74)
T 2li8_A 66 AQQ 68 (74)
T ss_dssp GGT
T ss_pred cCC
Confidence 643
No 6
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.31 E-value=8.9e-13 Score=83.99 Aligned_cols=38 Identities=39% Similarity=0.912 Sum_probs=35.4
Q ss_pred cccccCcCCCcccccCCCC-CceeeccCCCCcccCCCCC
Q 024887 213 IVCRNCQQLGHMSRDCMGP-LMVCHNCGGRGHLAYECPS 250 (261)
Q Consensus 213 ~~C~~C~~~GH~~~dC~~~-~~~C~~Cg~~GH~~~~C~~ 250 (261)
+.||+|+++||++++||++ .+.||+|++.||++++||+
T Consensus 1 i~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 1 LTCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CBCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCTTTSCC
T ss_pred CeeeccCCCCcccccCCCCCCCccccCCCCCCccCcCcC
Confidence 5799999999999999975 6899999999999999985
No 7
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.27 E-value=2.8e-12 Score=92.97 Aligned_cols=62 Identities=23% Similarity=0.497 Sum_probs=33.1
Q ss_pred CCcCCCCCCCCCCCCCCCcccccccCCCCcccccCCCcccCCCCCCCcccCCCCC---CCCCCCCCcCCCCCCCCCCCC
Q 024887 110 AGHRARDCTAPPLPPGDLRLCNNCYKQGHFAADCTNDKACNNCRKTGHLARDCPN---DPICNLCNVSGHVARHCPKSG 185 (261)
Q Consensus 110 ~GH~~~~Cp~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~C~~Cg~~GH~~~~Cp~---~~~C~~C~~~GH~a~~Cp~~~ 185 (261)
.||+++||+.+....... + =.....||+|++.||++++||. ...||+|++.||++++||+..
T Consensus 2 ~gh~~rdc~~~~~~~~~~---------~-----~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQK---------R-----RSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp ----------CCCCCCCS---------C-----CSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCGGGCTTGG
T ss_pred CccccCcCCCCCcCcccc---------c-----cCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCccCcCcCCc
Confidence 578888888765321100 0 0122457777777777777763 468999999999999999764
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=99.27 E-value=2.8e-12 Score=85.71 Aligned_cols=43 Identities=37% Similarity=0.872 Sum_probs=38.6
Q ss_pred cccccccCcCCCcccccCCCC-CceeeccCCCCcccCCCCCCCC
Q 024887 211 RDIVCRNCQQLGHMSRDCMGP-LMVCHNCGGRGHLAYECPSGRF 253 (261)
Q Consensus 211 ~~~~C~~C~~~GH~~~dC~~~-~~~C~~Cg~~GH~~~~C~~~~~ 253 (261)
+.+.||+|++.||++++||.+ .+.||+|++.||++++||+.+.
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 48 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPERQA 48 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCSSCC
T ss_pred CcCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcCCCC
Confidence 457899999999999999986 4789999999999999998764
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=99.23 E-value=2.8e-12 Score=87.70 Aligned_cols=44 Identities=30% Similarity=0.800 Sum_probs=39.5
Q ss_pred ccccccccCcCCCcccccCCCC-CceeeccCCCCcccCCCCCCCC
Q 024887 210 YRDIVCRNCQQLGHMSRDCMGP-LMVCHNCGGRGHLAYECPSGRF 253 (261)
Q Consensus 210 ~~~~~C~~C~~~GH~~~dC~~~-~~~C~~Cg~~GH~~~~C~~~~~ 253 (261)
...+.||+|++.||++++||.+ ...||+|++.||++++||+.++
T Consensus 10 ~~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 54 (55)
T 1a1t_A 10 RKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQA 54 (55)
T ss_dssp GGTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSSSCC
T ss_pred CCCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcCcCC
Confidence 4567999999999999999975 5789999999999999998764
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.23 E-value=3.5e-12 Score=80.27 Aligned_cols=36 Identities=42% Similarity=1.019 Sum_probs=33.8
Q ss_pred ccccCcCCCcccccCCCCCceeeccCCCCcccCCCCC
Q 024887 214 VCRNCQQLGHMSRDCMGPLMVCHNCGGRGHLAYECPS 250 (261)
Q Consensus 214 ~C~~C~~~GH~~~dC~~~~~~C~~Cg~~GH~~~~C~~ 250 (261)
.||+|+++||++++||.+ +.||+|++.||++++||+
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 699999999999999965 799999999999999985
No 11
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.18 E-value=9.6e-12 Score=86.85 Aligned_cols=43 Identities=28% Similarity=0.536 Sum_probs=37.3
Q ss_pred ccccccCcCCCcccccCCCC------CceeeccCCCCcccCCCCCCCCC
Q 024887 212 DIVCRNCQQLGHMSRDCMGP------LMVCHNCGGRGHLAYECPSGRFL 254 (261)
Q Consensus 212 ~~~C~~C~~~GH~~~dC~~~------~~~C~~Cg~~GH~~~~C~~~~~~ 254 (261)
.+.||+|+++||++++||.+ .+.||+|++.||++++||+.+..
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~~ 52 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRKRDGN 52 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCCCC--
T ss_pred CCcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcCCCcC
Confidence 56899999999999999985 36799999999999999987653
No 12
>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=99.14 E-value=2.9e-11 Score=84.98 Aligned_cols=43 Identities=30% Similarity=0.645 Sum_probs=38.4
Q ss_pred cccccccCcCCCcccccCCCC--CceeeccCCCCcccCCCCCCCC
Q 024887 211 RDIVCRNCQQLGHMSRDCMGP--LMVCHNCGGRGHLAYECPSGRF 253 (261)
Q Consensus 211 ~~~~C~~C~~~GH~~~dC~~~--~~~C~~Cg~~GH~~~~C~~~~~ 253 (261)
..+.||+|+++||+++|||.+ .+.||+|++.||++++||+...
T Consensus 6 r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 6 SGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp SCCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCCccc
Confidence 346899999999999999973 6899999999999999998654
No 13
>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=99.12 E-value=1.5e-11 Score=85.50 Aligned_cols=40 Identities=30% Similarity=0.648 Sum_probs=19.7
Q ss_pred ccccCcCCCcccccCCCC---------CceeeccCCCCcccCCCCCCCC
Q 024887 214 VCRNCQQLGHMSRDCMGP---------LMVCHNCGGRGHLAYECPSGRF 253 (261)
Q Consensus 214 ~C~~C~~~GH~~~dC~~~---------~~~C~~Cg~~GH~~~~C~~~~~ 253 (261)
.||+|+++||+++|||+. .+.||+|++.||+++|||+...
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp --------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred ccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 699999999999999984 4789999999999999998764
No 14
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.12 E-value=3.1e-11 Score=75.90 Aligned_cols=36 Identities=36% Similarity=0.969 Sum_probs=26.5
Q ss_pred ccCCCCCCCcccCCCCCCCCCCCCCcCCCCCCCCCC
Q 024887 148 ACNNCRKTGHLARDCPNDPICNLCNVSGHVARHCPK 183 (261)
Q Consensus 148 ~C~~Cg~~GH~~~~Cp~~~~C~~C~~~GH~a~~Cp~ 183 (261)
.||+|++.||++++||....||+|++.||++++||+
T Consensus 2 ~C~~Cg~~GH~~~~C~~~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSCBTTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcCcCeEccCCCcCCccCcCcC
Confidence 467777777777777766777777777888777774
No 15
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.09 E-value=7.7e-11 Score=74.92 Aligned_cols=36 Identities=42% Similarity=0.808 Sum_probs=27.4
Q ss_pred ccCCCCCCCcccCCCCCC--CCCCCCCcCCCCCCCCCC
Q 024887 148 ACNNCRKTGHLARDCPND--PICNLCNVSGHVARHCPK 183 (261)
Q Consensus 148 ~C~~Cg~~GH~~~~Cp~~--~~C~~C~~~GH~a~~Cp~ 183 (261)
.||+|++.||++++||+. ..||+|++.||++++||+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCTTTSCC
T ss_pred eeeccCCCCcccccCCCCCCCccccCCCCCCccCcCcC
Confidence 467777777777777653 678888888888888884
No 16
>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=99.06 E-value=5.2e-11 Score=81.29 Aligned_cols=44 Identities=34% Similarity=0.759 Sum_probs=30.2
Q ss_pred CCCCcCcccccccCcCCCCCCCCCCC--cccCCCCCCCCccccccc
Q 024887 38 RRGYSQSNLCKNCKRPGHFARECPNV--AICHNCGLPGHIASECTT 81 (261)
Q Consensus 38 ~~~~~~~~~C~~Cg~~GH~a~~Cp~~--~~C~~Cg~~GH~~~~Cp~ 81 (261)
.......+.||+|+++||++++||.. ..||+|++.||++++||.
T Consensus 6 f~g~~~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 6 FRNQRKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp GGGGGGTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSS
T ss_pred cCCCCCCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcC
Confidence 33444567899999999999999864 456666666666666554
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=99.06 E-value=1.4e-10 Score=81.44 Aligned_cols=38 Identities=29% Similarity=0.762 Sum_probs=19.8
Q ss_pred cccCCCCCCCcccCCCCC---CCCCCCCCcCCCCCCCCCCC
Q 024887 147 KACNNCRKTGHLARDCPN---DPICNLCNVSGHVARHCPKS 184 (261)
Q Consensus 147 ~~C~~Cg~~GH~~~~Cp~---~~~C~~C~~~GH~a~~Cp~~ 184 (261)
..||+|+++||++++||. ...||+|+++||++++||+.
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTGG
T ss_pred CcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCCc
Confidence 345555555555555553 33455555555555555543
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=98.98 E-value=3.9e-10 Score=75.22 Aligned_cols=38 Identities=37% Similarity=0.852 Sum_probs=25.8
Q ss_pred cccccccCcCCCCCCCCCCC--cccCCCCCCCCccccccc
Q 024887 44 SNLCKNCKRPGHFARECPNV--AICHNCGLPGHIASECTT 81 (261)
Q Consensus 44 ~~~C~~Cg~~GH~a~~Cp~~--~~C~~Cg~~GH~~~~Cp~ 81 (261)
.+.||+|+++||++++||.. ..||+|++.||++++||.
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCS
T ss_pred cCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcC
Confidence 56788888888888888764 345555555555555554
No 19
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.95 E-value=4.2e-10 Score=78.42 Aligned_cols=39 Identities=38% Similarity=0.902 Sum_probs=27.4
Q ss_pred cccCCCCCCCcccCCCCC-------CCCCCCCCcCCCCCCCCCCCC
Q 024887 147 KACNNCRKTGHLARDCPN-------DPICNLCNVSGHVARHCPKSG 185 (261)
Q Consensus 147 ~~C~~Cg~~GH~~~~Cp~-------~~~C~~C~~~GH~a~~Cp~~~ 185 (261)
..||+|++.||++++||. ...||+|++.||++++||+..
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCCCC
T ss_pred CcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcCCC
Confidence 345555555555555554 357999999999999999864
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=98.85 E-value=1.2e-09 Score=75.70 Aligned_cols=18 Identities=39% Similarity=1.005 Sum_probs=0.0
Q ss_pred cccccCcCCCCCCCCCCC
Q 024887 46 LCKNCKRPGHFARECPNV 63 (261)
Q Consensus 46 ~C~~Cg~~GH~a~~Cp~~ 63 (261)
.||+|+++||++++||..
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~ 20 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEH 20 (60)
T ss_dssp ------------------
T ss_pred ccccCCCCCcCHhhCcCC
Confidence 466666666666666653
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=98.84 E-value=1.9e-09 Score=88.06 Aligned_cols=44 Identities=30% Similarity=0.621 Sum_probs=38.2
Q ss_pred ccccccCcCCCcccccCCCC--CceeeccCCCCcccCCCCCCCCCC
Q 024887 212 DIVCRNCQQLGHMSRDCMGP--LMVCHNCGGRGHLAYECPSGRFLD 255 (261)
Q Consensus 212 ~~~C~~C~~~GH~~~dC~~~--~~~C~~Cg~~GH~~~~C~~~~~~~ 255 (261)
.+.||+|++.||++++||.+ .+.||+|++.||++++||+..+..
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~~~~ 142 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQQG 142 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTTC--
T ss_pred CCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCCCCC
Confidence 56899999999999999973 579999999999999999876653
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=98.61 E-value=1.8e-08 Score=82.21 Aligned_cols=40 Identities=28% Similarity=0.720 Sum_probs=31.1
Q ss_pred cccCCCCCCCcccCCCCC---CCCCCCCCcCCCCCCCCCCCCC
Q 024887 147 KACNNCRKTGHLARDCPN---DPICNLCNVSGHVARHCPKSGG 186 (261)
Q Consensus 147 ~~C~~Cg~~GH~~~~Cp~---~~~C~~C~~~GH~a~~Cp~~~~ 186 (261)
..||+|++.||++++||. ...||+|++.||++++||+...
T Consensus 98 ~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~~ 140 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQ 140 (148)
T ss_dssp CCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTTC
T ss_pred CcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCCC
Confidence 457777777777777765 4689999999999999998744
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=97.86 E-value=6e-06 Score=47.47 Aligned_cols=18 Identities=44% Similarity=1.010 Sum_probs=10.8
Q ss_pred cccccCcCCCcccccCCC
Q 024887 213 IVCRNCQQLGHMSRDCMG 230 (261)
Q Consensus 213 ~~C~~C~~~GH~~~dC~~ 230 (261)
+.||+|+++|||++|||+
T Consensus 3 ~~Cf~CG~~GH~ardC~~ 20 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKE 20 (26)
T ss_dssp CBCTTTCCBSSCTTTTTC
T ss_pred CeeEeCCCCCcccccCCC
Confidence 356666666666666654
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=97.83 E-value=8e-06 Score=46.95 Aligned_cols=20 Identities=30% Similarity=0.901 Sum_probs=16.5
Q ss_pred cccccccCcCCCCCCCCCCC
Q 024887 44 SNLCKNCKRPGHFARECPNV 63 (261)
Q Consensus 44 ~~~C~~Cg~~GH~a~~Cp~~ 63 (261)
...||+|+++||++++||..
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 46789999999999999864
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=97.80 E-value=1e-05 Score=47.68 Aligned_cols=22 Identities=41% Similarity=0.883 Sum_probs=17.1
Q ss_pred cccccccCcCCCcccccCCCCC
Q 024887 211 RDIVCRNCQQLGHMSRDCMGPL 232 (261)
Q Consensus 211 ~~~~C~~C~~~GH~~~dC~~~~ 232 (261)
+.+.||||+++||+++||+.+.
T Consensus 5 ~~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 5 KVIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSSS
T ss_pred CCCEEEECCccccCHhHCcccc
Confidence 3577888888888888888653
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=97.78 E-value=1.4e-05 Score=50.73 Aligned_cols=25 Identities=36% Similarity=0.919 Sum_probs=20.9
Q ss_pred CCCcCcccccccCcCCCCCCCCCCC
Q 024887 39 RGYSQSNLCKNCKRPGHFARECPNV 63 (261)
Q Consensus 39 ~~~~~~~~C~~Cg~~GH~a~~Cp~~ 63 (261)
........||+|++.||+|++||..
T Consensus 5 ~~~~~~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 5 RSQLDRDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp CCSCCSSSCSSSCCTTCCTTSCSSS
T ss_pred cCCCCCCeeeECCCCCcchhhCcCC
Confidence 3445578999999999999999985
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=97.64 E-value=2.6e-05 Score=49.45 Aligned_cols=21 Identities=29% Similarity=0.694 Sum_probs=14.1
Q ss_pred cccccccCcCCCcccccCCCC
Q 024887 211 RDIVCRNCQQLGHMSRDCMGP 231 (261)
Q Consensus 211 ~~~~C~~C~~~GH~~~dC~~~ 231 (261)
..++||+|++.|||++|||..
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSS
T ss_pred CCCeeeECCCCCcchhhCcCC
Confidence 346677777777777777753
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=97.61 E-value=2e-05 Score=46.36 Aligned_cols=20 Identities=40% Similarity=0.758 Sum_probs=17.5
Q ss_pred cccccccCcCCCCCCCCCCC
Q 024887 44 SNLCKNCKRPGHFARECPNV 63 (261)
Q Consensus 44 ~~~C~~Cg~~GH~a~~Cp~~ 63 (261)
++.||||+++||++++||..
T Consensus 6 ~~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSS
T ss_pred CCEEEECCccccCHhHCccc
Confidence 57899999999999999864
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=97.38 E-value=0.00013 Score=49.57 Aligned_cols=25 Identities=36% Similarity=0.919 Sum_probs=21.2
Q ss_pred CCCcCcccccccCcCCCCCCCCCCC
Q 024887 39 RGYSQSNLCKNCKRPGHFARECPNV 63 (261)
Q Consensus 39 ~~~~~~~~C~~Cg~~GH~a~~Cp~~ 63 (261)
........||+|++.||+++|||..
T Consensus 18 ~~~~~~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 18 RSQLDRDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp STTCCTTBCSSSCCBSSCGGGCTTC
T ss_pred CCCCCCCcceeCCCCCcccccCcCC
Confidence 4445578999999999999999985
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=97.32 E-value=0.00015 Score=49.34 Aligned_cols=21 Identities=29% Similarity=0.694 Sum_probs=16.3
Q ss_pred cccccccCcCCCcccccCCCC
Q 024887 211 RDIVCRNCQQLGHMSRDCMGP 231 (261)
Q Consensus 211 ~~~~C~~C~~~GH~~~dC~~~ 231 (261)
..+.||+|++.|||++|||..
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTC
T ss_pred CCCcceeCCCCCcccccCcCC
Confidence 456788888888888888864
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=97.02 E-value=0.00017 Score=48.87 Aligned_cols=17 Identities=29% Similarity=0.827 Sum_probs=11.5
Q ss_pred cccccCcCCCcccccCC
Q 024887 213 IVCRNCQQLGHMSRDCM 229 (261)
Q Consensus 213 ~~C~~C~~~GH~~~dC~ 229 (261)
..||+|+++|||++|||
T Consensus 8 ~~C~kCGk~GH~~k~Cp 24 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCP 24 (55)
T ss_dssp CCCTTTCCTTSCGGGCS
T ss_pred CccccCCCcCcccccCC
Confidence 45777777777777776
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=96.46 E-value=0.0013 Score=44.46 Aligned_cols=22 Identities=32% Similarity=0.821 Sum_probs=18.9
Q ss_pred CCceeeccCCCCcccCCCCCCC
Q 024887 231 PLMVCHNCGGRGHLAYECPSGR 252 (261)
Q Consensus 231 ~~~~C~~Cg~~GH~~~~C~~~~ 252 (261)
....||+||+.|||+++||+..
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSGGG
T ss_pred CCCccccCCCcCcccccCCCCC
Confidence 3678999999999999999543
No 33
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=81.24 E-value=0.34 Score=27.26 Aligned_cols=20 Identities=35% Similarity=0.966 Sum_probs=15.0
Q ss_pred CCCCCCCCcCCCCCCCCCCC
Q 024887 165 DPICNLCNVSGHVARHCPKS 184 (261)
Q Consensus 165 ~~~C~~C~~~GH~a~~Cp~~ 184 (261)
++.|-+|...||++.+|++.
T Consensus 3 RpYCe~CE~FGH~t~~C~d~ 22 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCNDD 22 (26)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CccchHHHHhCcccccCCcc
Confidence 45688888888888888653
No 34
>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=63.94 E-value=1.6 Score=27.28 Aligned_cols=21 Identities=33% Similarity=0.934 Sum_probs=16.0
Q ss_pred CCCCCCCCCcCCCCCCCCCCC
Q 024887 164 NDPICNLCNVSGHVARHCPKS 184 (261)
Q Consensus 164 ~~~~C~~C~~~GH~a~~Cp~~ 184 (261)
.++.|.+|...||++.+|++.
T Consensus 19 eRpYCd~CEvFGH~t~~Cndd 39 (42)
T 2pzo_E 19 ERPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp --CEETTTTEESSCGGGCCTT
T ss_pred CCcccccccccCcccccCCcc
Confidence 467899999999999998753
No 35
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=50.78 E-value=3.9 Score=25.59 Aligned_cols=20 Identities=35% Similarity=0.966 Sum_probs=16.4
Q ss_pred CCCCCCCCcCCCCCCCCCCC
Q 024887 165 DPICNLCNVSGHVARHCPKS 184 (261)
Q Consensus 165 ~~~C~~C~~~GH~a~~Cp~~ 184 (261)
++.|-+|...||+..+|+..
T Consensus 20 RpYCe~CEVFGH~t~eC~dd 39 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp CCEETTTTEESSCGGGCCTT
T ss_pred CcccccceecccccccCCcc
Confidence 67888888899998888763
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=50.26 E-value=41 Score=22.58 Aligned_cols=34 Identities=26% Similarity=0.438 Sum_probs=26.9
Q ss_pred CCCcccccCCCCCceeeccCCCC-------cccCCCCCCCCC
Q 024887 220 QLGHMSRDCMGPLMVCHNCGGRG-------HLAYECPSGRFL 254 (261)
Q Consensus 220 ~~GH~~~dC~~~~~~C~~Cg~~G-------H~~~~C~~~~~~ 254 (261)
-..|+..+||...+.|-.|+..- |. .+||...+.
T Consensus 32 l~~H~~~~C~~r~v~C~~C~~~~~~~~l~~H~-~~Cp~~~v~ 72 (76)
T 2yuc_A 32 LPAHLQHDCPKRRLKCEFCGCDFSGEAYESHE-GMCPQESSG 72 (76)
T ss_dssp STTTTTTSCTTSCCCCSSSCCCCCHHHHHHTT-TSCTTSSCC
T ss_pred HHhhCHhhCCCcceECCCCCCccCHHHHHHHH-hHCCCCccC
Confidence 34599889999889999998875 87 688876553
No 37
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=37.15 E-value=9.3 Score=28.62 Aligned_cols=43 Identities=28% Similarity=0.573 Sum_probs=31.6
Q ss_pred cccccccCcCCC--------ccccc------CCCC-CceeeccCCCC---cccCCCCCCCC
Q 024887 211 RDIVCRNCQQLG--------HMSRD------CMGP-LMVCHNCGGRG---HLAYECPSGRF 253 (261)
Q Consensus 211 ~~~~C~~C~~~G--------H~~~d------C~~~-~~~C~~Cg~~G---H~~~~C~~~~~ 253 (261)
....|-+|...| |..+| ||-. .-.|-.||..| |..+-||....
T Consensus 35 ~~~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPvLR~Y~CpiCGATGd~AHT~kYCP~~~~ 95 (106)
T 3alr_A 35 ERKFCSFCKHNGETEAVYTSHYLKNRDGDVMCPYLRQYKCPLCGATGAKAHTKRFCPMVDK 95 (106)
T ss_dssp ---CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTTGGGCCCTTTCCCGGGCCCGGGCTTCGG
T ss_pred CCCEeECCCCCCcccCccccceeECCCCCCcCCCcccccCCCCCCcCCcccceecCCCCCC
Confidence 445677776544 99999 8864 45899999998 99999997763
No 38
>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=24.39 E-value=86 Score=22.87 Aligned_cols=29 Identities=28% Similarity=0.650 Sum_probs=19.0
Q ss_pred cccccccCcCCCCCCCCCCCcccCCCCCCCCcc
Q 024887 44 SNLCKNCKRPGHFARECPNVAICHNCGLPGHIA 76 (261)
Q Consensus 44 ~~~C~~Cg~~GH~a~~Cp~~~~C~~Cg~~GH~~ 76 (261)
..+|..|+..|.+. ....|..|.+..|..
T Consensus 7 ~~~C~~C~~~g~~~----~ll~C~~C~~~~H~~ 35 (111)
T 2ysm_A 7 GANCAVCDSPGDLL----DQFFCTTCGQHYHGM 35 (111)
T ss_dssp CSCBTTTCCCCCTT----TSEECSSSCCEECTT
T ss_pred CCCCcCCCCCCCCc----CCeECCCCCCCcChH
Confidence 45788888887652 224677777766653
Done!