Query 021409
Match_columns 312
No_of_seqs 246 out of 1582
Neff 5.6
Searched_HMMs 29240
Date Mon Mar 25 03:43:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021409.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/021409hhsearch_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 6.9E-27 2.4E-31 194.4 10.2 105 180-294 4-123 (124)
2 2lli_A Protein AIR2; RNA surve 99.8 2E-19 6.9E-24 149.3 8.4 94 167-267 12-123 (124)
3 3nyb_B Protein AIR2; polya RNA 99.6 6.8E-16 2.3E-20 120.6 2.5 59 224-295 7-65 (83)
4 3nyb_B Protein AIR2; polya RNA 99.5 6E-15 2.1E-19 115.2 5.0 63 203-270 5-67 (83)
5 2li8_A Protein LIN-28 homolog 99.3 6.8E-13 2.3E-17 101.4 4.8 64 231-299 2-69 (74)
6 2li8_A Protein LIN-28 homolog 99.2 4.2E-12 1.4E-16 97.1 4.5 65 189-269 2-66 (74)
7 2a51_A Nucleocapsid protein; s 99.1 5.7E-11 2E-15 79.7 3.9 37 224-266 2-38 (39)
8 2a51_A Nucleocapsid protein; s 99.1 5.3E-11 1.8E-15 79.8 3.5 37 182-220 2-38 (39)
9 1a1t_A Nucleocapsid protein; s 99.1 2.3E-11 7.9E-16 87.3 1.4 39 181-221 13-51 (55)
10 2bl6_A Nucleocapsid protein P1 99.0 7.7E-11 2.6E-15 78.2 3.0 34 252-293 3-36 (37)
11 2bl6_A Nucleocapsid protein P1 99.0 9.9E-11 3.4E-15 77.7 3.1 34 225-266 3-36 (37)
12 2ec7_A GAG polyprotein (PR55GA 99.0 2.2E-10 7.6E-15 80.6 4.1 39 250-294 7-45 (49)
13 2ec7_A GAG polyprotein (PR55GA 99.0 2.6E-10 8.8E-15 80.2 3.9 39 181-221 7-45 (49)
14 2ihx_A Nucleocapsid (NC) prote 99.0 3.2E-10 1.1E-14 83.2 4.1 45 250-295 5-49 (61)
15 2cqf_A RNA-binding protein LIN 98.9 6.5E-10 2.2E-14 82.1 4.7 40 224-268 9-48 (63)
16 1a1t_A Nucleocapsid protein; s 98.9 4.7E-10 1.6E-14 80.4 3.6 40 250-295 13-52 (55)
17 2ihx_A Nucleocapsid (NC) prote 98.9 5.5E-10 1.9E-14 81.9 3.8 46 223-269 5-50 (61)
18 2cqf_A RNA-binding protein LIN 98.9 1E-09 3.5E-14 81.1 4.5 39 181-220 8-46 (63)
19 1cl4_A Protein (GAG polyprotei 98.9 3.5E-10 1.2E-14 82.5 2.0 45 224-268 3-49 (60)
20 1cl4_A Protein (GAG polyprotei 98.9 5.9E-10 2E-14 81.2 2.9 48 250-297 2-51 (60)
21 3ts2_A Protein LIN-28 homolog 98.7 6.4E-09 2.2E-13 89.0 3.3 40 224-268 99-138 (148)
22 3ts2_A Protein LIN-28 homolog 98.7 8.5E-09 2.9E-13 88.2 3.8 45 249-298 97-141 (148)
23 1dsq_A Nucleic acid binding pr 97.6 2.4E-05 8.3E-10 47.8 2.1 18 251-268 4-21 (26)
24 1dsq_A Nucleic acid binding pr 97.5 3.3E-05 1.1E-09 47.2 2.0 21 276-296 2-22 (26)
25 1nc8_A Nucleocapsid protein; H 97.5 4.2E-05 1.4E-09 47.8 2.2 18 251-268 8-25 (29)
26 1nc8_A Nucleocapsid protein; H 97.4 5E-05 1.7E-09 47.4 1.7 20 180-199 6-25 (29)
27 1a6b_B Momulv, zinc finger pro 97.3 0.00012 4E-09 49.4 2.9 20 249-268 10-29 (40)
28 1a6b_B Momulv, zinc finger pro 97.3 0.00018 6.3E-09 48.4 3.7 21 276-296 10-30 (40)
29 1u6p_A GAG polyprotein; MLV, A 97.1 0.00028 9.6E-09 50.9 2.7 21 248-268 22-42 (56)
30 1u6p_A GAG polyprotein; MLV, A 97.0 0.00032 1.1E-08 50.6 2.8 23 275-297 22-44 (56)
31 2ysa_A Retinoblastoma-binding 96.7 0.0017 5.8E-08 46.6 4.2 18 250-267 8-25 (55)
32 2ysa_A Retinoblastoma-binding 96.5 0.0018 6E-08 46.5 3.2 19 223-241 8-26 (55)
33 2hqh_E Restin; beta/BETA struc 67.5 2 6.9E-05 26.0 1.1 19 250-268 4-22 (26)
34 2yuc_A TNF receptor-associated 62.1 16 0.00054 26.1 5.5 40 212-259 6-54 (76)
35 2yuc_A TNF receptor-associated 61.6 13 0.00044 26.6 4.9 39 190-232 7-54 (76)
36 3alr_A Nanos protein; zinc-fin 60.1 3.7 0.00013 32.8 1.7 19 250-268 72-93 (106)
37 2ysm_A Myeloid/lymphoid or mix 56.5 13 0.00044 29.0 4.4 21 276-298 69-89 (111)
38 3alr_A Nanos protein; zinc-fin 48.5 7.1 0.00024 31.2 1.6 19 224-242 73-94 (106)
39 2pzo_E CAP-Gly domain-containi 38.2 11 0.00039 25.2 1.1 20 249-268 20-39 (42)
40 3v43_A Histone acetyltransfera 34.0 30 0.001 27.1 3.2 88 204-307 6-105 (112)
41 1exk_A DNAJ protein; extended 30.1 26 0.00088 25.3 2.1 11 181-191 12-22 (79)
42 1nlt_A Protein YDJ1, mitochond 28.1 58 0.002 29.0 4.5 48 181-235 39-93 (248)
43 2ctt_A DNAJ homolog subfamily 26.1 39 0.0013 25.9 2.6 28 181-214 29-56 (104)
44 3e2u_E CAP-Gly domain-containi 21.4 31 0.0011 23.1 1.0 20 249-268 20-39 (42)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.94 E-value=6.9e-27 Score=194.42 Aligned_cols=105 Identities=25% Similarity=0.504 Sum_probs=94.2
Q ss_pred cccccccccccccccCCcccccCCCccccCCCC-CcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccC
Q 021409 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSL-EHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258 (312)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~-GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~ 258 (312)
...||+|++.||++++||.. .||+||+. ||++++||....||+|++.||++++||..+. ...||+|++.
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~~-----~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~-----~~~C~~Cg~~ 73 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPHI-----ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWK-----KVQCTLCKSK 73 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTSC-----CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCC-----CCSSSSSCSS
T ss_pred CCcccCCCCCCcCcccCcCC-----cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCccc-----CccCCCCCcC
Confidence 46799999999999999985 79999998 9999999998899999999999999998753 4689999999
Q ss_pred CCCccCCCCCCCC--------------CCCCCccccccCCCCcCcCCCcC
Q 021409 259 GHDMFSCRNSYSL--------------DDLKVCLYFLVQYLAFCIMQSLL 294 (312)
Q Consensus 259 GH~a~dCp~~~~~--------------~~~~~~~Cy~Cg~~GH~~~eC~~ 294 (312)
||++++||..|.. .....+.||+|++.|||+.+||+
T Consensus 74 GH~~~~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 74 KHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp CCCTTTCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCC
T ss_pred CcchhhCCCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcC
Confidence 9999999998752 11246899999999999999996
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.78 E-value=2e-19 Score=149.29 Aligned_cols=94 Identities=29% Similarity=0.606 Sum_probs=78.5
Q ss_pred cCCCCCCCCCCcccccccccccc-cccccCCcccccCCCccccCCCCCcCccccccC---cccccccCCCCCCCCCCCCC
Q 021409 167 LRGPRYFDPPDRGWQTCYNCGEE-GHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKA---QDCFICKKGGHRAKDCPDKH 242 (312)
Q Consensus 167 ~rg~R~f~~~~~~~~~C~~CG~~-GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~---~~C~~Cg~~GH~ardCp~~~ 242 (312)
..++...+.+. ..||+||+. ||++++||.. ..||+|++.||++++||.. ..||+|++.||++++||..+
T Consensus 12 ~~GH~~~~Cp~---~~C~~Cg~~~gH~~~~C~~~----~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~Cp~~~ 84 (124)
T 2lli_A 12 QRGHLKKDCPH---IICSYCGATDDHYSRHCPKA----IQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERCPSIW 84 (124)
T ss_dssp SSSCCTTTTTS---CCCTTTCCTTTCCTTTGGGS----SCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTCCCST
T ss_pred CCCcCcccCcC---CcCcCCCCcCCccCcccCCc----ccccccCCCCCccccCcCcccCccCCCCCcCCcchhhCCCcc
Confidence 34444444433 589999999 9999999986 6899999999999999974 68999999999999999987
Q ss_pred CC--------------CCcccccccccccCCCCccCCCC
Q 021409 243 KS--------------GFQNAQVCLKCGDSGHDMFSCRN 267 (312)
Q Consensus 243 ~~--------------~~~~~~~C~~Cg~~GH~a~dCp~ 267 (312)
+. .+...+.||+|++.||++++||+
T Consensus 85 ~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 85 RAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp TSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCC
T ss_pred ccccccCccccccccccCCCCCCcCCCCCCCcCcccCcC
Confidence 53 11236789999999999999996
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.56 E-value=6.8e-16 Score=120.62 Aligned_cols=59 Identities=12% Similarity=0.105 Sum_probs=23.0
Q ss_pred ccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCc
Q 021409 224 DCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
.|++|++.||++++||+.| .||+|+..||++++|+.+ ...+.||+||+.|||+++||++
T Consensus 7 ~C~~Cg~~GH~~~~Cp~~~--------rcY~c~~~gh~~~~c~~p-----~~~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 7 QCTLCKSKKHSKERCPSIW--------RAYILVDDNEKAKPKVLP-----FHTIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCSSSCCSSSCGGGCGGGT--------CCCCBC------------------CCCBCSSSSCBSSCGGGCSSC
T ss_pred CCCCCCCCCCccccCCCcc--------cccccccCCcccccccCC-----CCCCeecccCCCCcCcccCCcc
Confidence 4555555555555555432 355555555555555433 1234555555555555555543
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=6e-15 Score=115.23 Aligned_cols=63 Identities=25% Similarity=0.480 Sum_probs=39.5
Q ss_pred CCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCCCC
Q 021409 203 KKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYS 270 (312)
Q Consensus 203 ~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~ 270 (312)
.+.|++|++.||++++||....||+|+..||++++|+... ..+.||+||+.||++++||..+.
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~-----~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPF-----HTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGTCCCCBC------------------CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred cCCCCCCCCCCCccccCCCcccccccccCCcccccccCCC-----CCCeecccCCCCcCcccCCcccc
Confidence 3567788888888888877667888888888888887642 26789999999999999998754
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.34 E-value=6.8e-13 Score=101.44 Aligned_cols=64 Identities=13% Similarity=0.217 Sum_probs=40.5
Q ss_pred CCCCCCCCCCCCCCC----CcccccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCcCCCC
Q 021409 231 GGHRAKDCPDKHKSG----FQNAQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLVSFKS 299 (312)
Q Consensus 231 ~GH~ardCp~~~~~~----~~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~~~~~ 299 (312)
.||+++||+...... ......||+|++.||++++||... ....||+|++.||++.+||...-..
T Consensus 2 ~gh~~rdc~~~~~~~~~~~~~r~~~C~~Cg~~GH~a~~C~~~~-----~~~~C~~Cg~~GH~ar~Cp~~~~~~ 69 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQKRRSKGDRCYNCGGLDHHAKECKLPP-----QPKKCHFCQSISHMVASCPLKAQQG 69 (74)
T ss_dssp ----------CCCCCCCSCCSTTSCCTTTCCSSSCTTTCSSCC-----CCCCCTTTCCTTSCGGGCTTGGGTC
T ss_pred CccccCcCCCCCcCccccccCCCCcccccCCcCcCcccCCCCC-----CCCccCCcCCcCCccCcCcCCcCCC
Confidence 578888888764321 123567999999999999998752 2478999999999999999766443
No 6
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.24 E-value=4.2e-12 Score=97.06 Aligned_cols=65 Identities=22% Similarity=0.384 Sum_probs=35.8
Q ss_pred ccccccCCcccccCCCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCC
Q 021409 189 EGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 189 ~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
.||++++|+.+.... ....=.....||+|++.||++++||.... ...||+|++.||++++||..
T Consensus 2 ~gh~~rdc~~~~~~~-----------~~~~~~r~~~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 2 SGLVPRGSHMPKGKS-----------MQKRRSKGDRCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp ----------CCCCC-----------CCSCCSTTSCCTTTCCSSSCTTTCSSCCC-----CCCCTTTCCTTSCGGGCTTG
T ss_pred CccccCcCCCCCcCc-----------cccccCCCCcccccCCcCcCcccCCCCCC-----CCccCCcCCcCCccCcCcCC
Confidence 589999999872111 00000123578888888888888886432 46899999999999999876
Q ss_pred C
Q 021409 269 Y 269 (312)
Q Consensus 269 ~ 269 (312)
.
T Consensus 66 ~ 66 (74)
T 2li8_A 66 A 66 (74)
T ss_dssp G
T ss_pred c
Confidence 4
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.09 E-value=5.7e-11 Score=79.68 Aligned_cols=37 Identities=35% Similarity=0.875 Sum_probs=17.1
Q ss_pred ccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCC
Q 021409 224 DCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCR 266 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp 266 (312)
.||+|++.||++++||... ...||+|++.||++++||
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 3455555555555554421 234444444444444444
No 8
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.08 E-value=5.3e-11 Score=79.84 Aligned_cols=37 Identities=51% Similarity=1.154 Sum_probs=24.7
Q ss_pred cccccccccccccCCcccccCCCccccCCCCCcCccccc
Q 021409 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (312)
Q Consensus 182 ~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp 220 (312)
.||+||+.||++++||.+ +...||+||+.||++++||
T Consensus 2 ~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQP--RQEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp BCTTTCCBSSCTTTCCSC--CCSSCTTTCCSSSCTTTSC
T ss_pred eeeccCCCCcccccCCCC--CCCccccCCCCCCccCcCc
Confidence 578888888888888765 3345666666666655555
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=99.07 E-value=2.3e-11 Score=87.29 Aligned_cols=39 Identities=49% Similarity=1.204 Sum_probs=27.3
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCcccccc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~ 221 (312)
..||+||+.||++++||.+ +...||+||+.||++++||.
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSC--SCCBCTTTCCBSSCGGGCSS
T ss_pred cceeeeCCCCcChhhcCCC--CCCEeCCCCCcCCccCCCcC
Confidence 6788888888888888875 33456666666666666654
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.05 E-value=7.7e-11 Score=78.18 Aligned_cols=34 Identities=26% Similarity=0.492 Sum_probs=16.6
Q ss_pred ccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCc
Q 021409 252 CLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSL 293 (312)
Q Consensus 252 C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~ 293 (312)
||+|++.||++++||.. ..||+|++.||++.+||
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 44455555555555433 34555555555555554
No 11
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.03 E-value=9.9e-11 Score=77.65 Aligned_cols=34 Identities=41% Similarity=0.990 Sum_probs=15.7
Q ss_pred cccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCC
Q 021409 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCR 266 (312)
Q Consensus 225 C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp 266 (312)
||+|++.||++++||.. ..||+|++.||++++||
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 44444444444444431 24445555555554444
No 12
>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=80.55 Aligned_cols=39 Identities=18% Similarity=0.317 Sum_probs=21.0
Q ss_pred ccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcC
Q 021409 250 QVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLL 294 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~ 294 (312)
..||+||+.||++++||.+. ...||+|++.||++.+||.
T Consensus 7 ~~C~~Cg~~GH~a~~C~~~~------~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 7 IRCWNCGKEGHSARQCRAPR------RQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CBCTTTCCBTCCTTTCCCSS------CCSCSSSCCSSCCGGGCCS
T ss_pred CeeeecCCCCcChhhCcCCC------CCeeCcCCCcCCccCCCcC
Confidence 34555555555555555541 2345555555555555554
No 13
>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=98.99 E-value=2.6e-10 Score=80.22 Aligned_cols=39 Identities=41% Similarity=1.069 Sum_probs=25.1
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCcccccc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~ 221 (312)
..||+||+.||++++||.+ +...||+||+.||++++||.
T Consensus 7 ~~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 7 IRCWNCGKEGHSARQCRAP--RRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CBCTTTCCBTCCTTTCCCS--SCCSCSSSCCSSCCGGGCCS
T ss_pred CeeeecCCCCcChhhCcCC--CCCeeCcCCCcCCccCCCcC
Confidence 5688888888888888765 23445555555555555553
No 14
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.98 E-value=3.2e-10 Score=83.20 Aligned_cols=45 Identities=18% Similarity=0.217 Sum_probs=20.4
Q ss_pred ccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCc
Q 021409 250 QVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
..||+|++.||++++||...... .....||+|++.||++.+||..
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~~~-~~~~~C~~Cg~~GH~ar~C~~~ 49 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRKSG-NSRERCQLCNGMGHNAKQCRKR 49 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTSSS-CCCSBCTTTCCBSSCGGGCCCC
T ss_pred CcccccCCCCeehhhCcCCcCCC-CCCCeeCCCCCCCCCcCCCcCC
Confidence 34555555555555554432110 1124455555555555555543
No 15
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=98.94 E-value=6.5e-10 Score=82.12 Aligned_cols=40 Identities=28% Similarity=0.570 Sum_probs=18.6
Q ss_pred ccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCC
Q 021409 224 DCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
.||+|++.||++++||.... ...||+|++.||++++||..
T Consensus 9 ~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 9 RCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp CCSSSCCSSSCTTTCCSCCC-----SSCCTTTCCSSSCTTTCTGG
T ss_pred cccccCCCCcChhhCCCCCC-----CCccCCcCCcCCccCcCCCc
Confidence 34444444444444443211 23455555555555555543
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=98.93 E-value=4.7e-10 Score=80.37 Aligned_cols=40 Identities=18% Similarity=0.292 Sum_probs=22.4
Q ss_pred ccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCc
Q 021409 250 QVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
..||+|++.||++++||.+ ....||+|++.||++.+||..
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~------~~~~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAP------RKKGCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSC------SCCBCTTTCCBSSCGGGCSSS
T ss_pred cceeeeCCCCcChhhcCCC------CCCEeCCCCCcCCccCCCcCc
Confidence 4566666666666666554 124566666666666666543
No 17
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.93 E-value=5.5e-10 Score=81.90 Aligned_cols=46 Identities=35% Similarity=0.801 Sum_probs=31.5
Q ss_pred cccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCCC
Q 021409 223 QDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSY 269 (312)
Q Consensus 223 ~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~ 269 (312)
..||+|++.||++++||...... .....||+|++.||++++||...
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~~~-~~~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRKSG-NSRERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTSSS-CCCSBCTTTCCBSSCGGGCCCCC
T ss_pred CcccccCCCCeehhhCcCCcCCC-CCCCeeCCCCCCCCCcCCCcCCC
Confidence 45777777777777777653211 12467888888888888888764
No 18
>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=98.90 E-value=1e-09 Score=81.08 Aligned_cols=39 Identities=38% Similarity=0.893 Sum_probs=20.9
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCccccc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp 220 (312)
..||+|++.||++++||.+ .....||+||+.||++++||
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~-~~~~~C~~Cg~~GH~ar~Cp 46 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLP-PQPKKCHFCQSISHMVASCP 46 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSC-CCSSCCTTTCCSSSCTTTCT
T ss_pred CcccccCCCCcChhhCCCC-CCCCccCCcCCcCCccCcCC
Confidence 5677777777777777754 12233444444444444443
No 19
>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=98.90 E-value=3.5e-10 Score=82.46 Aligned_cols=45 Identities=29% Similarity=0.691 Sum_probs=12.1
Q ss_pred ccccccCCCCCCCCCCCCCCCCC--cccccccccccCCCCccCCCCC
Q 021409 224 DCFICKKGGHRAKDCPDKHKSGF--QNAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~~~~~--~~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
.||+|++.||++++||....... .....||+|++.||++++||..
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~ 49 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSK 49 (60)
T ss_dssp --------------------------CCCSCSSCSSCSSCSTTCCCT
T ss_pred ccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCc
Confidence 46666666666666665421100 0134566666666666666654
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=98.89 E-value=5.9e-10 Score=81.23 Aligned_cols=48 Identities=17% Similarity=0.147 Sum_probs=20.0
Q ss_pred ccccccccCCCCccCCCCCCCCC--CCCCccccccCCCCcCcCCCcCcCC
Q 021409 250 QVCLKCGDSGHDMFSCRNSYSLD--DLKVCLYFLVQYLAFCIMQSLLVSF 297 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~~~~--~~~~~~Cy~Cg~~GH~~~eC~~~~~ 297 (312)
..||+|++.||++++||...... ......||+|++.||++++|++..-
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp ---------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred CccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 36999999999999999873211 1135789999999999999998764
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=98.69 E-value=6.4e-09 Score=88.99 Aligned_cols=40 Identities=28% Similarity=0.570 Sum_probs=20.4
Q ss_pred ccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCC
Q 021409 224 DCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
.||+|++.||++++||.... ...||+|++.||++++||+.
T Consensus 99 ~C~~Cg~~GH~a~~C~~~~~-----~~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 99 RCYNCGGLDHHAKECKLPPQ-----PKKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp CCTTTCCSSCCGGGCCSCCC-----CCCCTTTCCSSCCGGGCTTT
T ss_pred cccEeCCccchhhhCCCCCC-----CCcccccCCcCCEeccCcCC
Confidence 45555555555555554321 23555555555555555554
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=98.68 E-value=8.5e-09 Score=88.21 Aligned_cols=45 Identities=16% Similarity=0.299 Sum_probs=38.4
Q ss_pred cccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCcCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLVSFK 298 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~~~~ 298 (312)
...||+|++.||++++||... ....||+|++.||++++||+..-.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~-----~~~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPP-----QPKKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCC-----CCCCCTTTCCSSCCGGGCTTTTC-
T ss_pred CCcccEeCCccchhhhCCCCC-----CCCcccccCCcCCEeccCcCCCCC
Confidence 468999999999999999852 256899999999999999976544
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=97.61 E-value=2.4e-05 Score=47.79 Aligned_cols=18 Identities=39% Similarity=1.056 Sum_probs=9.4
Q ss_pred cccccccCCCCccCCCCC
Q 021409 251 VCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 251 ~C~~Cg~~GH~a~dCp~~ 268 (312)
.||+||+.||++++||..
T Consensus 4 ~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 4 VCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp BCTTTCCBSSCTTTTTCC
T ss_pred eeEeCCCCCcccccCCCc
Confidence 455555555555555543
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=97.54 E-value=3.3e-05 Score=47.18 Aligned_cols=21 Identities=5% Similarity=-0.224 Sum_probs=15.3
Q ss_pred CccccccCCCCcCcCCCcCcC
Q 021409 276 VCLYFLVQYLAFCIMQSLLVS 296 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~~~~ 296 (312)
...||+||+.||++++||.+.
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 356888888888888887664
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=97.50 E-value=4.2e-05 Score=47.79 Aligned_cols=18 Identities=39% Similarity=1.001 Sum_probs=8.8
Q ss_pred cccccccCCCCccCCCCC
Q 021409 251 VCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 251 ~C~~Cg~~GH~a~dCp~~ 268 (312)
.||+||+.||++++||.+
T Consensus 8 ~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 8 RCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp BCTTTSCBSSCGGGCCSS
T ss_pred EEEECCccccCHhHCccc
Confidence 455555555555555443
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=97.41 E-value=5e-05 Score=47.45 Aligned_cols=20 Identities=50% Similarity=1.124 Sum_probs=17.4
Q ss_pred cccccccccccccccCCccc
Q 021409 180 WQTCYNCGEEGHMAVNCRSA 199 (312)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (312)
.+.||+||++||++++|+.+
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 36799999999999999887
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=97.34 E-value=0.00012 Score=49.39 Aligned_cols=20 Identities=25% Similarity=0.594 Sum_probs=11.8
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
...||+||+.||++++||..
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSS
T ss_pred CCeeeECCCCCcchhhCcCC
Confidence 44566666666666666654
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=97.32 E-value=0.00018 Score=48.42 Aligned_cols=21 Identities=0% Similarity=-0.320 Sum_probs=11.2
Q ss_pred CccccccCCCCcCcCCCcCcC
Q 021409 276 VCLYFLVQYLAFCIMQSLLVS 296 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~~~~ 296 (312)
...||+|++.||++.+||...
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 345555555555555555443
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=97.06 E-value=0.00028 Score=50.87 Aligned_cols=21 Identities=24% Similarity=0.601 Sum_probs=13.9
Q ss_pred ccccccccccCCCCccCCCCC
Q 021409 248 NAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 248 ~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
....||+||+.|||+++||..
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 345677777777777777665
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=97.04 E-value=0.00032 Score=50.60 Aligned_cols=23 Identities=0% Similarity=-0.331 Sum_probs=12.8
Q ss_pred CCccccccCCCCcCcCCCcCcCC
Q 021409 275 KVCLYFLVQYLAFCIMQSLLVSF 297 (312)
Q Consensus 275 ~~~~Cy~Cg~~GH~~~eC~~~~~ 297 (312)
....||+||+.|||+.+||....
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 34556666666666666655443
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=96.67 E-value=0.0017 Score=46.57 Aligned_cols=18 Identities=33% Similarity=1.008 Sum_probs=11.0
Q ss_pred ccccccccCCCCccCCCC
Q 021409 250 QVCLKCGDSGHDMFSCRN 267 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~ 267 (312)
..||+||+.||++++||.
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 456666666666666663
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=96.49 E-value=0.0018 Score=46.52 Aligned_cols=19 Identities=47% Similarity=1.081 Sum_probs=11.9
Q ss_pred cccccccCCCCCCCCCCCC
Q 021409 223 QDCFICKKGGHRAKDCPDK 241 (312)
Q Consensus 223 ~~C~~Cg~~GH~ardCp~~ 241 (312)
..||+|+++||++++||..
T Consensus 8 ~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp CCCTTTCCTTSCGGGCSGG
T ss_pred CccccCCCcCcccccCCCC
Confidence 4566666666666666643
No 33
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=67.45 E-value=2 Score=26.03 Aligned_cols=19 Identities=26% Similarity=0.529 Sum_probs=13.3
Q ss_pred ccccccccCCCCccCCCCC
Q 021409 250 QVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~ 268 (312)
..|-.|...||...+|+..
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=62.07 E-value=16 Score=26.13 Aligned_cols=40 Identities=30% Similarity=0.536 Sum_probs=20.7
Q ss_pred CCcCcccccc-Cccc-ccccC-------CCCCCCCCCCCCCCCCcccccccccccCC
Q 021409 212 LEHGVRQCSK-AQDC-FICKK-------GGHRAKDCPDKHKSGFQNAQVCLKCGDSG 259 (312)
Q Consensus 212 ~GH~a~~Cp~-~~~C-~~Cg~-------~GH~ardCp~~~~~~~~~~~~C~~Cg~~G 259 (312)
..|. ..|+. ...| ..|+. .-|+..+||.. .+.|..|+...
T Consensus 6 ~~H~-~~C~~~~v~C~~~C~~~v~r~~l~~H~~~~C~~r-------~v~C~~C~~~~ 54 (76)
T 2yuc_A 6 SGHL-NTCSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKR-------RLKCEFCGCDF 54 (76)
T ss_dssp SCCC-CCCCCSCCBCTTCCSCBCCSSSSTTTTTTSCTTS-------CCCCSSSCCCC
T ss_pred HHHH-HHCCCcccCCCccccHHhhHhHHHhhCHhhCCCc-------ceECCCCCCcc
Confidence 3466 56664 3456 45642 23555556654 34555555544
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=61.62 E-value=13 Score=26.62 Aligned_cols=39 Identities=28% Similarity=0.551 Sum_probs=20.4
Q ss_pred cccccCCcccccCCCcc-ccCCC-------CCcCccccccC-cccccccCCC
Q 021409 190 GHMAVNCRSAVKRKKPC-FVCGS-------LEHGVRQCSKA-QDCFICKKGG 232 (312)
Q Consensus 190 GH~a~~Cp~~~~~~~~C-~~CG~-------~GH~a~~Cp~~-~~C~~Cg~~G 232 (312)
.|. ..|+.. ...| ..|+. ..|....||.. ..|..|+...
T Consensus 7 ~H~-~~C~~~---~v~C~~~C~~~v~r~~l~~H~~~~C~~r~v~C~~C~~~~ 54 (76)
T 2yuc_A 7 GHL-NTCSFN---VIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDF 54 (76)
T ss_dssp CCC-CCCCCS---CCBCTTCCSCBCCSSSSTTTTTTSCTTSCCCCSSSCCCC
T ss_pred HHH-HHCCCc---ccCCCccccHHhhHhHHHhhCHhhCCCcceECCCCCCcc
Confidence 455 555543 2445 45652 34666666653 3566665543
No 36
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=60.07 E-value=3.7 Score=32.84 Aligned_cols=19 Identities=32% Similarity=0.625 Sum_probs=10.1
Q ss_pred ccccccccCC---CCccCCCCC
Q 021409 250 QVCLKCGDSG---HDMFSCRNS 268 (312)
Q Consensus 250 ~~C~~Cg~~G---H~a~dCp~~ 268 (312)
-+|-.||..| |..+-||..
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 3555555555 555555543
No 37
>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=56.55 E-value=13 Score=29.03 Aligned_cols=21 Identities=10% Similarity=-0.113 Sum_probs=12.0
Q ss_pred CccccccCCCCcCcCCCcCcCCC
Q 021409 276 VCLYFLVQYLAFCIMQSLLVSFK 298 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~~~~~~ 298 (312)
.+.|-.|.+.=|+. |..+++.
T Consensus 69 ll~Cd~C~~~yH~~--Cl~ppl~ 89 (111)
T 2ysm_A 69 MLVCDTCDKGYHTF--CLQPVMK 89 (111)
T ss_dssp EEECSSSCCEEEGG--GSSSCCS
T ss_pred eeECCCCCcHHhHH--hcCCccc
Confidence 35666666665554 6555544
No 38
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=48.51 E-value=7.1 Score=31.18 Aligned_cols=19 Identities=32% Similarity=0.787 Sum_probs=10.4
Q ss_pred ccccccCCC---CCCCCCCCCC
Q 021409 224 DCFICKKGG---HRAKDCPDKH 242 (312)
Q Consensus 224 ~C~~Cg~~G---H~ardCp~~~ 242 (312)
.|-.|+..| |..+.||...
T Consensus 73 ~CpiCGATGd~AHT~kYCP~~~ 94 (106)
T 3alr_A 73 KCPLCGATGAKAHTKRFCPMVD 94 (106)
T ss_dssp CCTTTCCCGGGCCCGGGCTTCG
T ss_pred cCCCCCCcCCcccceecCCCCC
Confidence 455555555 6666666543
No 39
>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=38.25 E-value=11 Score=25.18 Aligned_cols=20 Identities=25% Similarity=0.493 Sum_probs=14.5
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
...|-.|.-.||+..+|+..
T Consensus 20 RpYCd~CEvFGH~t~~Cndd 39 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CcccccccccCcccccCCcc
Confidence 45788888888888888654
No 40
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A
Probab=34.01 E-value=30 Score=27.11 Aligned_cols=88 Identities=15% Similarity=0.255 Sum_probs=48.5
Q ss_pred CccccCCCCCcCcccc-c-cCcccccccCCCCCCCCCCCCC--------C--CCCcccccccccccCCCCccCCCCCCCC
Q 021409 204 KPCFVCGSLEHGVRQC-S-KAQDCFICKKGGHRAKDCPDKH--------K--SGFQNAQVCLKCGDSGHDMFSCRNSYSL 271 (312)
Q Consensus 204 ~~C~~CG~~GH~a~~C-p-~~~~C~~Cg~~GH~ardCp~~~--------~--~~~~~~~~C~~Cg~~GH~a~dCp~~~~~ 271 (312)
..|..|...+...+.= + .-..|..|+...|.+ |-... . ..-+.-..|..|+..|..
T Consensus 6 ~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~--Cl~~~~~~~~~~~~~~W~C~~C~~C~vC~~~~~~---------- 73 (112)
T 3v43_A 6 PICSFCLGTKEQNREKKPEELISCADCGNSGHPS--CLKFSPELTVRVKALRWQCIECKTCSSCRDQGKN---------- 73 (112)
T ss_dssp SSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHH--HHTCCHHHHHHHHTSCCCCTTTCCBTTTCCCCCT----------
T ss_pred ccccccCCchhhCcCCCchhceEhhhcCCCCCCc--hhcCCHHHHHHhhccccccccCCccccccCcCCC----------
Confidence 4788887755322211 1 134688888888863 42210 0 001112356666665421
Q ss_pred CCCCCccccccCCCCcCcCCCcCcCCCCCCceeeEE
Q 021409 272 DDLKVCLYFLVQYLAFCIMQSLLVSFKSLEFVCIWY 307 (312)
Q Consensus 272 ~~~~~~~Cy~Cg~~GH~~~eC~~~~~~~~~~~~~~~ 307 (312)
....+.|-.|...=|+. |..+++...-- ..||
T Consensus 74 -~~~ll~Cd~C~~~yH~~--Cl~p~l~~~P~-~~W~ 105 (112)
T 3v43_A 74 -ADNMLFCDSCDRGFHME--CCDPPLTRMPK-GMWI 105 (112)
T ss_dssp -TCCCEECTTTCCEECGG--GCSSCCSSCCS-SCCC
T ss_pred -ccceEEcCCCCCeeecc--cCCCCCCCCCC-CCeE
Confidence 12357888898877765 88777665432 2565
No 41
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1
Probab=30.12 E-value=26 Score=25.27 Aligned_cols=11 Identities=27% Similarity=0.709 Sum_probs=6.4
Q ss_pred ccccccccccc
Q 021409 181 QTCYNCGEEGH 191 (312)
Q Consensus 181 ~~C~~CG~~GH 191 (312)
..|..|...|.
T Consensus 12 ~~C~~C~G~G~ 22 (79)
T 1exk_A 12 EECDVCHGSGA 22 (79)
T ss_dssp EECGGGTTTSB
T ss_pred eECCCCccccc
Confidence 45666666553
No 42
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1
Probab=28.07 E-value=58 Score=29.01 Aligned_cols=48 Identities=19% Similarity=0.361 Sum_probs=26.7
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCccccc-------cCcccccccCCCCCC
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS-------KAQDCFICKKGGHRA 235 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp-------~~~~C~~Cg~~GH~a 235 (312)
..|..|...|-... ....|..|+..|.....=. ....|..|+..|...
T Consensus 39 ~~C~~C~G~G~~~g-------~~~~C~~C~G~G~~~~~~~~g~~~~~~~~~C~~C~G~G~~i 93 (248)
T 1nlt_A 39 ILCKECEGRGGKKG-------AVKKCTSCNGQGIKFVTRQMGPMIQRFQTECDVCHGTGDII 93 (248)
T ss_dssp EECTTTTTCSBSTT-------TCCCCTTSSSSSCEEEEEESSSEEEEEECSCTTCSSSSSCC
T ss_pred EeCCCCcCccCCCC-------CCccCCCCCCCcEEEEEEecCceEEEEEEcCCCCCCcCEEe
Confidence 57888887764321 1246888887775321110 123577777766543
No 43
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=26.15 E-value=39 Score=25.87 Aligned_cols=28 Identities=25% Similarity=0.640 Sum_probs=14.5
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEH 214 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH 214 (312)
..|..|...|.... .....|..|+..|.
T Consensus 29 ~~C~~C~G~G~~~g------~~~~~C~~C~G~G~ 56 (104)
T 2ctt_A 29 DTCERCNGKGNEPG------TKVQHCHYCGGSGM 56 (104)
T ss_dssp EECSSSSSSSSCTT------CCCEECSSSSSSCE
T ss_pred eECCCCcCCccCCC------CCCccCCCCCCCEE
Confidence 56777766663211 11234666666553
No 44
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=21.44 E-value=31 Score=23.07 Aligned_cols=20 Identities=25% Similarity=0.493 Sum_probs=16.0
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
...|-.|--.||+..+|+..
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 45788888888888888765
Done!