Query 011506
Match_columns 484
No_of_seqs 322 out of 2000
Neff 6.2
Searched_HMMs 29240
Date Mon Mar 25 09:32:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011506.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011506hhsearch_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 6.3E-23 2.1E-27 181.2 11.0 81 180-270 4-85 (124)
2 2lli_A Protein AIR2; RNA surve 99.9 7.6E-23 2.6E-27 180.6 10.5 107 202-346 3-123 (124)
3 3nyb_B Protein AIR2; polya RNA 99.4 4E-14 1.4E-18 116.3 4.4 62 249-348 5-66 (83)
4 3nyb_B Protein AIR2; polya RNA 99.2 4.7E-12 1.6E-16 103.9 4.5 60 181-268 6-65 (83)
5 2li8_A Protein LIN-28 homolog 99.2 2.9E-11 9.9E-16 97.2 5.7 44 299-348 23-66 (74)
6 2li8_A Protein LIN-28 homolog 99.0 8.6E-11 3E-15 94.4 3.8 64 189-268 2-65 (74)
7 2a51_A Nucleocapsid protein; s 99.0 1.7E-10 5.9E-15 81.3 4.0 39 301-346 1-39 (39)
8 2bl6_A Nucleocapsid protein P1 99.0 2.7E-10 9.4E-15 79.3 3.3 37 301-346 1-37 (37)
9 2ec7_A GAG polyprotein (PR55GA 99.0 5.2E-10 1.8E-14 82.7 4.9 43 299-348 5-47 (49)
10 2a51_A Nucleocapsid protein; s 98.9 3.5E-10 1.2E-14 79.6 3.2 38 181-220 1-38 (39)
11 2cqf_A RNA-binding protein LIN 98.9 1.3E-09 4.5E-14 84.8 5.9 43 300-348 7-49 (63)
12 2ihx_A Nucleocapsid (NC) prote 98.9 1.4E-09 4.9E-14 84.0 4.2 47 300-348 4-50 (61)
13 1a1t_A Nucleocapsid protein; s 98.8 4.9E-10 1.7E-14 84.7 1.0 40 180-221 12-51 (55)
14 1a1t_A Nucleocapsid protein; s 98.8 1.6E-09 5.6E-14 81.8 3.4 43 299-348 11-53 (55)
15 2ec7_A GAG polyprotein (PR55GA 98.8 2E-09 6.8E-14 79.6 3.2 40 180-221 6-45 (49)
16 2cqf_A RNA-binding protein LIN 98.8 3.2E-09 1.1E-13 82.6 3.9 39 181-220 8-46 (63)
17 2bl6_A Nucleocapsid protein P1 98.8 2.9E-09 9.8E-14 74.1 3.1 35 182-220 2-36 (37)
18 1cl4_A Protein (GAG polyprotei 98.8 2.3E-09 7.8E-14 82.5 2.3 48 301-348 2-50 (60)
19 2ihx_A Nucleocapsid (NC) prote 98.7 5E-09 1.7E-13 80.9 3.3 47 180-242 4-50 (61)
20 1cl4_A Protein (GAG polyprotei 98.7 3.7E-09 1.2E-13 81.3 2.1 49 181-242 2-50 (60)
21 3ts2_A Protein LIN-28 homolog 98.6 2.2E-08 7.6E-13 90.7 4.5 43 300-348 97-139 (148)
22 3ts2_A Protein LIN-28 homolog 98.5 4.5E-08 1.5E-12 88.7 3.7 41 180-221 97-137 (148)
23 1dsq_A Nucleic acid binding pr 97.5 4.6E-05 1.6E-09 48.6 2.2 19 329-347 3-21 (26)
24 1a6b_B Momulv, zinc finger pro 97.4 0.00013 4.6E-09 51.3 3.5 21 328-348 10-30 (40)
25 1nc8_A Nucleocapsid protein; H 97.3 8.4E-05 2.9E-09 48.6 1.8 20 180-199 6-25 (29)
26 1dsq_A Nucleic acid binding pr 97.3 0.00012 4E-09 46.7 2.1 20 301-320 3-22 (26)
27 1nc8_A Nucleocapsid protein; H 97.2 0.00012 4E-09 47.9 2.1 18 329-346 7-24 (29)
28 1u6p_A GAG polyprotein; MLV, A 97.0 0.00049 1.7E-08 52.0 3.7 23 327-349 22-44 (56)
29 1a6b_B Momulv, zinc finger pro 97.0 0.00046 1.6E-08 48.6 3.0 23 299-321 9-31 (40)
30 1u6p_A GAG polyprotein; MLV, A 96.4 0.0012 4.1E-08 49.9 1.9 23 299-321 22-44 (56)
31 2ysa_A Retinoblastoma-binding 95.7 0.0043 1.5E-07 46.6 2.0 18 181-198 8-25 (55)
32 2ysa_A Retinoblastoma-binding 95.6 0.0043 1.5E-07 46.6 1.9 20 328-347 7-26 (55)
33 2ysm_A Myeloid/lymphoid or mix 78.6 2.4 8.2E-05 35.5 4.8 44 251-306 56-101 (111)
34 2bl5_A MGC83862 protein, quaki 66.6 0.19 6.5E-06 44.7 -5.2 97 65-174 8-121 (140)
35 2ysm_A Myeloid/lymphoid or mix 62.4 8 0.00027 32.2 4.4 33 249-293 7-39 (111)
36 3alr_A Nanos protein; zinc-fin 57.8 3.5 0.00012 34.5 1.3 24 238-267 66-92 (106)
37 2l5u_A Chromodomain-helicase-D 54.1 4.5 0.00015 30.3 1.3 46 249-309 11-58 (61)
38 2yql_A PHD finger protein 21A; 54.1 9.3 0.00032 27.9 3.0 44 248-306 8-53 (56)
39 2hqh_E Restin; beta/BETA struc 53.1 3.2 0.00011 26.1 0.3 18 301-318 4-21 (26)
40 2hqh_E Restin; beta/BETA struc 51.8 4.4 0.00015 25.5 0.7 19 249-267 3-21 (26)
41 1mm2_A MI2-beta; PHD, zinc fin 51.7 16 0.00054 27.2 4.0 45 249-308 9-55 (61)
42 1fp0_A KAP-1 corepressor; PHD 48.4 23 0.00079 28.7 4.7 46 248-308 24-71 (88)
43 2puy_A PHD finger protein 21A; 46.5 11 0.00038 27.8 2.4 43 249-306 5-49 (60)
44 3alr_A Nanos protein; zinc-fin 45.7 7.4 0.00025 32.6 1.4 39 181-221 37-92 (106)
45 1xwh_A Autoimmune regulator; P 42.5 14 0.00048 27.9 2.5 31 277-307 21-53 (66)
46 2e6r_A Jumonji/ARID domain-con 34.9 30 0.001 28.0 3.5 16 277-292 32-47 (92)
47 2db3_A ATP-dependent RNA helic 32.6 1.9 6.4E-05 44.3 -5.3 66 378-448 30-95 (434)
48 2l43_A N-teminal domain from h 29.4 23 0.00079 28.5 1.9 50 249-308 25-74 (88)
49 3o36_A Transcription intermedi 29.3 35 0.0012 30.8 3.3 45 249-308 4-50 (184)
50 2pzo_E CAP-Gly domain-containi 29.0 13 0.00045 25.9 0.3 20 299-318 19-38 (42)
51 3u5n_A E3 ubiquitin-protein li 28.5 27 0.00094 32.2 2.5 47 249-310 7-55 (207)
52 1f62_A Transcription factor WS 27.1 33 0.0011 24.2 2.2 33 276-308 15-49 (51)
53 2pzo_E CAP-Gly domain-containi 26.4 19 0.00066 25.1 0.7 20 248-267 19-38 (42)
54 2ro1_A Transcription intermedi 26.2 47 0.0016 30.3 3.6 44 250-308 3-48 (189)
55 2lri_C Autoimmune regulator; Z 25.1 42 0.0014 25.5 2.5 45 249-308 12-58 (66)
56 3v43_A Histone acetyltransfera 24.5 1.5E+02 0.005 24.5 6.1 31 204-234 6-38 (112)
57 2ku3_A Bromodomain-containing 21.6 37 0.0013 26.1 1.6 49 249-307 16-64 (71)
58 3e2u_E CAP-Gly domain-containi 21.3 29 0.001 24.3 0.8 20 248-267 19-38 (42)
59 2yt5_A Metal-response element- 21.0 44 0.0015 24.8 1.9 33 276-308 23-60 (66)
60 2e6s_A E3 ubiquitin-protein li 20.9 1.2E+02 0.004 23.6 4.4 31 277-307 42-75 (77)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.88 E-value=6.3e-23 Score=181.17 Aligned_cols=81 Identities=32% Similarity=0.742 Sum_probs=74.5
Q ss_pred ccccccccccccccccccccccCCCCcccccCC-CcCcccCCCCccccccCCCCCCCCCCCCcccCCCcCCccccccCCC
Q 011506 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSL-EHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~-GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~ 258 (484)
.+.||+|++.||++++||.. .|++||+. ||++++||....||+|++.||++++||.... ...|++|++.
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 46799999999999999984 89999998 9999999988899999999999999998643 4789999999
Q ss_pred CcCCCCCCCCCC
Q 011506 259 GHDMFSCRNSYS 270 (484)
Q Consensus 259 GH~~~dCp~~~~ 270 (484)
||++++||..|.
T Consensus 74 GH~~~~Cp~~~~ 85 (124)
T 2lli_A 74 KHSKERCPSIWR 85 (124)
T ss_dssp CCCTTTCCCSTT
T ss_pred CcchhhCCCccc
Confidence 999999999875
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.88 E-value=7.6e-23 Score=180.62 Aligned_cols=107 Identities=27% Similarity=0.651 Sum_probs=91.5
Q ss_pred CCCCcccccCCCcCcccCCCCccccccCCC-CCCCCCCCCcccCCCcCCccccccCCCCcCCCCCCCCCCCCcccccccc
Q 011506 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKG-GHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCY 280 (484)
Q Consensus 202 ~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~-GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~ 280 (484)
+...||+|++.||++++|| ...||+|++. ||++++||.. ..|++|++.||++.+||..+
T Consensus 3 ~~~~C~~C~~~GH~~~~Cp-~~~C~~Cg~~~gH~~~~C~~~--------~~C~~Cg~~GH~~~~C~~~~----------- 62 (124)
T 2lli_A 3 AAPKCNNCSQRGHLKKDCP-HIICSYCGATDDHYSRHCPKA--------IQCSKCDEVGHYRSQCPHKW----------- 62 (124)
T ss_dssp CSSCCSSCSSSSCCTTTTT-SCCCTTTCCTTTCCTTTGGGS--------SCSSSSSCSSSSTTTSCCCC-----------
T ss_pred CCCcccCCCCCCcCcccCc-CCcCcCCCCcCCccCcccCCc--------ccccccCCCCCccccCcCcc-----------
Confidence 4568999999999999999 4689999998 9999999973 68999999999999998742
Q ss_pred cccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCCCCCCcc-------------cCCCccccccCCCCcCcCcCCC
Q 011506 281 ICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACARSRGETV-------------EASPSSCYNCGAEGHFARECVS 346 (484)
Q Consensus 281 ~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~~r~~~~-------------~~~~~~Cy~Cge~GH~ardCp~ 346 (484)
..+.||+|++.||++.+||..|+.+. +...++||+|++.|||++|||+
T Consensus 63 ------------------~~~~C~~Cg~~GH~~~~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 63 ------------------KKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp ------------------CCCSSSSSCSSCCCTTTCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTTTTTSCC
T ss_pred ------------------cCccCCCCCcCCcchhhCCCccccccccCccccccccccCCCCCCcCCCCCCCcCcccCcC
Confidence 12679999999999999999886422 1246899999999999999996
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.44 E-value=4e-14 Score=116.28 Aligned_cols=62 Identities=21% Similarity=0.473 Sum_probs=37.6
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCCCCCCcccCCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACARSRGETVEASP 328 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~~r~~~~~~~~ 328 (484)
...|++|++.||++++||.+| .||+|+..||.+.+|+.+. ..
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~--------------------------------rcY~c~~~gh~~~~c~~p~------~~ 46 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIW--------------------------------RAYILVDDNEKAKPKVLPF------HT 46 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGT--------------------------------CCCCBC-------------------CC
T ss_pred cCCCCCCCCCCCccccCCCcc--------------------------------cccccccCCcccccccCCC------CC
Confidence 467888888888887777643 5888888888888887642 35
Q ss_pred ccccccCCCCcCcCcCCCCc
Q 011506 329 SSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 329 ~~Cy~Cge~GH~ardCp~~~ 348 (484)
..||+||+.|||++|||+.+
T Consensus 47 ~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 47 IYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CBCSSSSCBSSCGGGCSSCC
T ss_pred CeecccCCCCcCcccCCccc
Confidence 88999999999999999754
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.23 E-value=4.7e-12 Score=103.93 Aligned_cols=60 Identities=23% Similarity=0.435 Sum_probs=25.7
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCCcccCCCcCCccccccCCCCc
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGH 260 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH 260 (484)
+.||+|++.||++++||.. ..||+|+..||++++|+.+.. .+.||+||+.||
T Consensus 6 ~~C~~Cg~~GH~~~~Cp~~-----------------------~rcY~c~~~gh~~~~c~~p~~-----~~~CYnCG~~GH 57 (83)
T 3nyb_B 6 VQCTLCKSKKHSKERCPSI-----------------------WRAYILVDDNEKAKPKVLPFH-----TIYCYNCGGKGH 57 (83)
T ss_dssp -CCSSSCCSSSCGGGCGGG-----------------------TCCCCBC-------------C-----CCBCSSSSCBSS
T ss_pred CCCCCCCCCCCccccCCCc-----------------------ccccccccCCcccccccCCCC-----CCeecccCCCCc
Confidence 4566666666666666653 344444444555445543321 345666666666
Q ss_pred CCCCCCCC
Q 011506 261 DMFSCRNS 268 (484)
Q Consensus 261 ~~~dCp~~ 268 (484)
+.++||..
T Consensus 58 ~~rdC~~~ 65 (83)
T 3nyb_B 58 FGDDCKEK 65 (83)
T ss_dssp CGGGCSSC
T ss_pred CcccCCcc
Confidence 66666553
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.16 E-value=2.9e-11 Score=97.17 Aligned_cols=44 Identities=25% Similarity=0.646 Sum_probs=38.1
Q ss_pred CCceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 299 GEVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
....||+|++.||++.+|+... ....||+|++.||++++||...
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~~------~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLPP------QPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSCC------CCCCCTTTCCTTSCGGGCTTGG
T ss_pred CCCcccccCCcCcCcccCCCCC------CCCccCCcCCcCCccCcCcCCc
Confidence 4478999999999999999743 2579999999999999999754
No 6
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.04 E-value=8.6e-11 Score=94.40 Aligned_cols=64 Identities=22% Similarity=0.402 Sum_probs=23.6
Q ss_pred cccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCCcccCCCcCCccccccCCCCcCCCCCCCC
Q 011506 189 EGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (484)
Q Consensus 189 ~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~ 268 (484)
.||++++|+.+.... ..+.=.....||+|++.||++++||.+.. ...|++|++.||++.+||..
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 589999998862110 00000012345555555555555554321 24566666666666666553
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.02 E-value=1.7e-10 Score=81.26 Aligned_cols=39 Identities=38% Similarity=1.028 Sum_probs=35.0
Q ss_pred ceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCC
Q 011506 301 VSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVS 346 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~ 346 (484)
+.||+|++.||++.+||.++ ...||+|++.||++++||+
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 47999999999999999753 4799999999999999984
No 8
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.96 E-value=2.7e-10 Score=79.29 Aligned_cols=37 Identities=38% Similarity=1.120 Sum_probs=33.8
Q ss_pred ceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCC
Q 011506 301 VSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVS 346 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~ 346 (484)
+.||+|++.||++.+||. +..||+|++.||++++||.
T Consensus 1 ~~C~~Cg~~GH~~~~C~~---------~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 1 QTCYNCGKPGHLSSQCRA---------PKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CCBSSSCCSSCCTTTSSC---------BTTCSSCCCTTGGGGTTCC
T ss_pred CcccccCCCCcchhhCcC---------cCeEccCCCcCCccCcCcC
Confidence 369999999999999997 4789999999999999984
No 9
>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=98.96 E-value=5.2e-10 Score=82.71 Aligned_cols=43 Identities=30% Similarity=0.898 Sum_probs=37.6
Q ss_pred CCceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 299 GEVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
..+.||+|++.||++.+|+.++ ...||+|++.||++++||.+.
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~~-------~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAPR-------RQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCSS-------CCSCSSSCCSSCCGGGCCSSC
T ss_pred CcCeeeecCCCCcChhhCcCCC-------CCeeCcCCCcCCccCCCcCCC
Confidence 3478999999999999999853 468999999999999999743
No 10
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=98.94 E-value=3.5e-10 Score=79.63 Aligned_cols=38 Identities=50% Similarity=1.109 Sum_probs=28.7
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCC
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~ 220 (484)
+.||+|++.||++++||.+ +...|++||+.||++++||
T Consensus 1 i~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 1 LTCFNCGKPGHTARMCRQP--RQEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp CBCTTTCCBSSCTTTCCSC--CCSSCTTTCCSSSCTTTSC
T ss_pred CeeeccCCCCcccccCCCC--CCCccccCCCCCCccCcCc
Confidence 4689999999999999874 3456777777777777776
No 11
>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=98.91 E-value=1.3e-09 Score=84.77 Aligned_cols=43 Identities=26% Similarity=0.669 Sum_probs=37.7
Q ss_pred CceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 300 EVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 300 ~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
...||+|++.||++.+|+... ....||+|++.||++++||...
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~------~~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPP------QPKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCC------CSSCCTTTCCSSSCTTTCTGGG
T ss_pred CCcccccCCCCcChhhCCCCC------CCCccCCcCCcCCccCcCCCcc
Confidence 478999999999999999753 2589999999999999999754
No 12
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.86 E-value=1.4e-09 Score=84.02 Aligned_cols=47 Identities=30% Similarity=0.691 Sum_probs=38.8
Q ss_pred CceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 300 EVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 300 ~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
...||+|++.||++.+||...... .....||+|++.||++++||...
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~--~~~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSG--NSRERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSS--CCCSBCTTTCCBSSCGGGCCCCC
T ss_pred CCcccccCCCCeehhhCcCCcCCC--CCCCeeCCCCCCCCCcCCCcCCC
Confidence 478999999999999999864321 12478999999999999999754
No 13
>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=98.84 E-value=4.9e-10 Score=84.75 Aligned_cols=40 Identities=48% Similarity=1.145 Sum_probs=30.1
Q ss_pred ccccccccccccccccccccccCCCCcccccCCCcCcccCCC
Q 011506 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~ 221 (484)
...||+|++.||++++||.+ +...|+.||+.||++++||.
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSC--SCCBCTTTCCBSSCGGGCSS
T ss_pred CcceeeeCCCCcChhhcCCC--CCCEeCCCCCcCCccCCCcC
Confidence 46799999999999999874 34567777777777777764
No 14
>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=98.82 E-value=1.6e-09 Score=81.81 Aligned_cols=43 Identities=37% Similarity=0.987 Sum_probs=37.4
Q ss_pred CCceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 299 GEVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
..+.||+|++.||++.+|+.++ ...||+|++.||++++||...
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~~-------~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAPR-------KKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSCS-------CCBCTTTCCBSSCGGGCSSSC
T ss_pred CCcceeeeCCCCcChhhcCCCC-------CCEeCCCCCcCCccCCCcCcC
Confidence 3478999999999999999753 478999999999999999753
No 15
>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=98.80 E-value=2e-09 Score=79.56 Aligned_cols=40 Identities=40% Similarity=1.021 Sum_probs=28.0
Q ss_pred ccccccccccccccccccccccCCCCcccccCCCcCcccCCC
Q 011506 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~ 221 (484)
.+.||+||+.||++++||.+ +...|+.||+.||++++||.
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~--~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAP--RRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCS--SCCSCSSSCCSSCCGGGCCS
T ss_pred cCeeeecCCCCcChhhCcCC--CCCeeCcCCCcCCccCCCcC
Confidence 36788888888888888874 33456666666666666653
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=98.78 E-value=3.2e-09 Score=82.61 Aligned_cols=39 Identities=38% Similarity=0.893 Sum_probs=21.8
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCC
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~ 220 (484)
..||+|++.||++++||.+ .....||+|++.||++++||
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 5677777777777777764 22233444444444444443
No 17
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.78 E-value=2.9e-09 Score=74.08 Aligned_cols=35 Identities=49% Similarity=1.145 Sum_probs=17.4
Q ss_pred ccccccccccccccccccccCCCCcccccCCCcCcccCC
Q 011506 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (484)
Q Consensus 182 ~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~ 220 (484)
.||+|++.||++++||.+ ..|++||+.||++++||
T Consensus 2 ~C~~Cg~~GH~~~~C~~~----~~C~~Cg~~GH~a~~C~ 36 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAP----KVCFKCKQPGHFSKQCR 36 (37)
T ss_dssp CBSSSCCSSCCTTTSSCB----TTCSSCCCTTGGGGTTC
T ss_pred cccccCCCCcchhhCcCc----CeEccCCCcCCccCcCc
Confidence 355555555555555543 34444444444444443
No 18
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=98.76 E-value=2.3e-09 Score=82.46 Aligned_cols=48 Identities=35% Similarity=0.769 Sum_probs=19.3
Q ss_pred ceeeccCCCCCCCCCCCCCCCCccc-CCCccccccCCCCcCcCcCCCCc
Q 011506 301 VSCFRCGQLGHTGLACARSRGETVE-ASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~~r~~~~~-~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
..||+|++.||++.+||........ .....||+|++.||++++|+...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp ---------------------------CCCSCSSCSSCSSCSTTCCCTT
T ss_pred CccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCcc
Confidence 3699999999999999986422110 13578999999999999999854
No 19
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.72 E-value=5e-09 Score=80.91 Aligned_cols=47 Identities=32% Similarity=0.792 Sum_probs=31.0
Q ss_pred ccccccccccccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCCcc
Q 011506 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~ 242 (484)
...||+|++.||++++||.+.... .....||+|++.||++++||...
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~----------------~~~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSG----------------NSRERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSS----------------CCCSBCTTTCCBSSCGGGCCCCC
T ss_pred CCcccccCCCCeehhhCcCCcCCC----------------CCCCeeCCCCCCCCCcCCCcCCC
Confidence 367999999999999998852111 01345666666667766776644
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=98.71 E-value=3.7e-09 Score=81.31 Aligned_cols=49 Identities=33% Similarity=0.774 Sum_probs=15.0
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCCcc
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~ 242 (484)
..||+|++.||++++||....... . ......||+|++.||++++||...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~------------~-~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNA------------E-PKVPGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp ----------------------------------------CCCSCSSCSSCSSCSTTCCCTT
T ss_pred CccccCCCCCcCHhhCcCCCCCcc------------c-cCCCcceeECCCCCCccCcCCCcc
Confidence 469999999999999998521100 0 011456777777777777777654
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=98.61 E-value=2.2e-08 Score=90.68 Aligned_cols=43 Identities=26% Similarity=0.660 Sum_probs=37.8
Q ss_pred CceeeccCCCCCCCCCCCCCCCCcccCCCccccccCCCCcCcCcCCCCc
Q 011506 300 EVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 300 ~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
...||||++.||++.+|+.... +..||+|++.||++++||...
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~------~~~C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQ------PKKCHFCQSINHMVASCPLKA 139 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCC------CCCCTTTCCSSCCGGGCTTTT
T ss_pred CCcccEeCCccchhhhCCCCCC------CCcccccCCcCCEeccCcCCC
Confidence 5789999999999999997432 579999999999999999754
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=98.51 E-value=4.5e-08 Score=88.67 Aligned_cols=41 Identities=37% Similarity=0.806 Sum_probs=30.5
Q ss_pred ccccccccccccccccccccccCCCCcccccCCCcCcccCCC
Q 011506 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~ 221 (484)
...||+|++.||++++||.+ .....|++||+.||++++||+
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~-~~~~~C~~Cg~~GH~~r~Cp~ 137 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLP-PQPKKCHFCQSINHMVASCPL 137 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSC-CCCCCCTTTCCSSCCGGGCTT
T ss_pred CCcccEeCCccchhhhCCCC-CCCCcccccCCcCCEeccCcC
Confidence 57899999999999999985 334566666666666666663
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=97.48 E-value=4.6e-05 Score=48.64 Aligned_cols=19 Identities=37% Similarity=1.144 Sum_probs=12.0
Q ss_pred ccccccCCCCcCcCcCCCC
Q 011506 329 SSCYNCGAEGHFARECVSS 347 (484)
Q Consensus 329 ~~Cy~Cge~GH~ardCp~~ 347 (484)
..||+||+.||++++||..
T Consensus 3 ~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC
T ss_pred CeeEeCCCCCcccccCCCc
Confidence 4566666666666666653
No 24
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=97.36 E-value=0.00013 Score=51.33 Aligned_cols=21 Identities=29% Similarity=0.850 Sum_probs=15.1
Q ss_pred CccccccCCCCcCcCcCCCCc
Q 011506 328 PSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp~~~ 348 (484)
...||+|++.|||+++||...
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 467777777777777777644
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=97.29 E-value=8.4e-05 Score=48.61 Aligned_cols=20 Identities=50% Similarity=1.124 Sum_probs=17.9
Q ss_pred cccccccccccccccccccc
Q 011506 180 WQTCYNCGEEGHMAVNCRSA 199 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~ 199 (484)
.+.|||||++||++++|+.+
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 47799999999999999986
No 26
>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=97.26 E-value=0.00012 Score=46.72 Aligned_cols=20 Identities=35% Similarity=0.893 Sum_probs=17.7
Q ss_pred ceeeccCCCCCCCCCCCCCC
Q 011506 301 VSCFRCGQLGHTGLACARSR 320 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~~r 320 (484)
..||+||+.||++++||...
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~ 22 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC-
T ss_pred CeeEeCCCCCcccccCCCcc
Confidence 68999999999999999864
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=97.25 E-value=0.00012 Score=47.91 Aligned_cols=18 Identities=56% Similarity=1.256 Sum_probs=9.9
Q ss_pred ccccccCCCCcCcCcCCC
Q 011506 329 SSCYNCGAEGHFARECVS 346 (484)
Q Consensus 329 ~~Cy~Cge~GH~ardCp~ 346 (484)
..||+|++.||++++|+.
T Consensus 7 ~~C~nCgk~GH~ar~C~~ 24 (29)
T 1nc8_A 7 IRCWNCGKEGHSARQCRA 24 (29)
T ss_dssp CBCTTTSCBSSCGGGCCS
T ss_pred CEEEECCccccCHhHCcc
Confidence 445555555555555554
No 28
>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=97.01 E-value=0.00049 Score=52.01 Aligned_cols=23 Identities=26% Similarity=0.823 Sum_probs=18.1
Q ss_pred CCccccccCCCCcCcCcCCCCcc
Q 011506 327 SPSSCYNCGAEGHFARECVSSSK 349 (484)
Q Consensus 327 ~~~~Cy~Cge~GH~ardCp~~~~ 349 (484)
....||+|++.|||+++||....
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 35788888888888888887554
No 29
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=96.96 E-value=0.00046 Score=48.56 Aligned_cols=23 Identities=22% Similarity=0.510 Sum_probs=20.3
Q ss_pred CCceeeccCCCCCCCCCCCCCCC
Q 011506 299 GEVSCFRCGQLGHTGLACARSRG 321 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~~r~ 321 (484)
....||+|++.||++.+||....
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~~ 31 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKPR 31 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSCC
T ss_pred CCCeeeECCCCCcchhhCcCCcc
Confidence 45899999999999999998654
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=96.39 E-value=0.0012 Score=49.88 Aligned_cols=23 Identities=22% Similarity=0.510 Sum_probs=20.1
Q ss_pred CCceeeccCCCCCCCCCCCCCCC
Q 011506 299 GEVSCFRCGQLGHTGLACARSRG 321 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~~r~ 321 (484)
....||+||+.|||+.+||....
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 45789999999999999998654
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=95.68 E-value=0.0043 Score=46.64 Aligned_cols=18 Identities=44% Similarity=1.152 Sum_probs=13.1
Q ss_pred cccccccccccccccccc
Q 011506 181 QTCYNCGEEGHMAVNCRS 198 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~ 198 (484)
..||+||+.||++++||.
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 457777777777777775
No 32
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=95.64 E-value=0.0043 Score=46.64 Aligned_cols=20 Identities=30% Similarity=1.077 Sum_probs=16.3
Q ss_pred CccccccCCCCcCcCcCCCC
Q 011506 328 PSSCYNCGAEGHFARECVSS 347 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp~~ 347 (484)
...||.||+.||++++||..
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGG
T ss_pred CCccccCCCcCcccccCCCC
Confidence 46799999999999999853
No 33
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}
Probab=78.62 E-value=2.4 Score=35.50 Aligned_cols=44 Identities=30% Similarity=0.552 Sum_probs=25.5
Q ss_pred cccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCC--CCCCCceeecc
Q 011506 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISD--AVPGEVSCFRC 306 (484)
Q Consensus 251 ~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~--~~~~~~~CynC 306 (484)
.|..|+..++. ...+.|..|.+..|+.|..+.. .+....+|..|
T Consensus 56 ~C~~C~~~~~~------------~~ll~Cd~C~~~yH~~Cl~ppl~~~P~g~W~C~~C 101 (111)
T 2ysm_A 56 VCQNCKQSGED------------SKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101 (111)
T ss_dssp CCTTTCCCSCC------------TTEEECSSSCCEEEGGGSSSCCSSCCSSCCCCHHH
T ss_pred cccccCccCCC------------CCeeECCCCCcHHhHHhcCCccccCCCCCcCCcCC
Confidence 56667666542 1346788888888887765322 12234455555
No 34
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Probab=66.60 E-value=0.19 Score=44.67 Aligned_cols=97 Identities=13% Similarity=0.159 Sum_probs=55.8
Q ss_pred ccccCCCCCCCCCCCCCCCCCcccccCCCCCCCcchhhhhhcccchhhHHHhhhhhhhhhhhhc--------cccce---
Q 011506 65 VVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVKSSDKKRIRVRKKKKKEADKIEI--------EDQSV--- 133 (484)
Q Consensus 65 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~i~~K~~~~~~~~~~~~--------e~~~v--- 133 (484)
|+++.++..++.| ..-||...+.....++ |+.|+.|++|+|.+...+.... .++.+
T Consensus 8 IP~~~~P~~NfiG-----------~IiGPrG~t~K~ie~e--Tg~kI~IrGkGS~kd~~~e~~~~g~~~~~~~~epLHV~ 74 (140)
T 2bl5_A 8 VPVKEYPDFNFVG-----------RILGPRGLTAKQLEAE--TGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVL 74 (140)
T ss_dssp CCTTTCSSSCHHH-----------HHTTTTHHHHHHHHHH--HSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEE
T ss_pred cCcccCCCCCeee-----------EEECCCcchHHHHHHH--HCCeEEEecCCCcccccccccccCCCCccccCCCcEEE
Confidence 6666555554444 4445555555555555 7999999999998765432211 12222
Q ss_pred eechhhh--hhhhhhccccccc----cccchhHHHHHHhhCCCCCCC
Q 011506 134 IVRKEEQ--KVETADNGDEGVT----TVEISDNIVLRKLLRGPRYFD 174 (484)
Q Consensus 134 ~~~~~ee--~~e~~~~A~e~v~----~~~~~~n~~~~~~~~~~Ryf~ 174 (484)
+.....+ -.+.++.|.+.+. .++...+.+.+.+|+.....+
T Consensus 75 Isa~~~~~~~~~~l~~A~~~I~~lL~p~~e~~de~K~~QL~eLA~lN 121 (140)
T 2bl5_A 75 ITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILN 121 (140)
T ss_dssp EEECSCCHHHHHHHHHHHHHHHHHSSCCSSSSSHHHHHHHTGGGSSS
T ss_pred EEecCchhhHHHHHHHHHHHHHHHCCCCCcchhHHHHHHHHHHHHhc
Confidence 2222221 1125555555544 445678888999998866554
No 35
>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=62.40 E-value=8 Score=32.20 Aligned_cols=33 Identities=24% Similarity=0.585 Sum_probs=18.9
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCcccccc
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNI 293 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~ 293 (484)
...|..|+..|.+. ..+.|..|.+..|+.|..+
T Consensus 7 ~~~C~~C~~~g~~~------------~ll~C~~C~~~~H~~Cl~~ 39 (111)
T 2ysm_A 7 GANCAVCDSPGDLL------------DQFFCTTCGQHYHGMCLDI 39 (111)
T ss_dssp CSCBTTTCCCCCTT------------TSEECSSSCCEECTTTTTC
T ss_pred CCCCcCCCCCCCCc------------CCeECCCCCCCcChHHhCC
Confidence 45666676665421 1246666677777766543
No 36
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=57.80 E-value=3.5 Score=34.51 Aligned_cols=24 Identities=33% Similarity=0.735 Sum_probs=18.3
Q ss_pred CCCcccCCCcCCccccccCCCC---cCCCCCCC
Q 011506 238 CPDKHKSGFQNAQVCLKCGDSG---HDMFSCRN 267 (484)
Q Consensus 238 Cp~~~~~~~~~~~~C~~Cg~~G---H~~~dCp~ 267 (484)
||..+. ..|-.||..| |..+-||.
T Consensus 66 CPvLR~------Y~CpiCGATGd~AHT~kYCP~ 92 (106)
T 3alr_A 66 CPYLRQ------YKCPLCGATGAKAHTKRFCPM 92 (106)
T ss_dssp CTTGGG------CCCTTTCCCGGGCCCGGGCTT
T ss_pred CCCccc------ccCCCCCCcCCcccceecCCC
Confidence 777653 6788888777 88888886
No 37
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}
Probab=54.12 E-value=4.5 Score=30.32 Aligned_cols=46 Identities=26% Similarity=0.597 Sum_probs=28.2
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQL 309 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~~ 309 (484)
...|..|+..|. .+.|-.|....|+.|..+. ..+....+|..|...
T Consensus 11 ~~~C~vC~~~g~---------------ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~ 58 (61)
T 2l5u_A 11 QDYCEVCQQGGE---------------IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE 58 (61)
T ss_dssp CSSCTTTSCCSS---------------EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred CCCCccCCCCCc---------------EEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence 457777776542 2456677777788776542 233445677777554
No 38
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=54.06 E-value=9.3 Score=27.92 Aligned_cols=44 Identities=30% Similarity=0.631 Sum_probs=25.4
Q ss_pred CCccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeecc
Q 011506 248 NAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRC 306 (484)
Q Consensus 248 ~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynC 306 (484)
+...|..|+..|. .+.|-.|....|+.|..+. ..+.....|..|
T Consensus 8 ~~~~C~vC~~~g~---------------ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C 53 (56)
T 2yql_A 8 HEDFCSVCRKSGQ---------------LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53 (56)
T ss_dssp SCCSCSSSCCSSC---------------CEECSSSSCEECSSSSSSCCCSCCCSSCCCHHH
T ss_pred CCCCCccCCCCCe---------------EEEcCCCCcceECccCCCCcCCCCCCceEChhh
Confidence 3467777776542 2456677777787766532 222334556555
No 39
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=53.13 E-value=3.2 Score=26.09 Aligned_cols=18 Identities=28% Similarity=0.595 Sum_probs=15.6
Q ss_pred ceeeccCCCCCCCCCCCC
Q 011506 301 VSCFRCGQLGHTGLACAR 318 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~ 318 (484)
.+|-+|-..||...+|..
T Consensus 4 pYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 4 PYCEICEMFGHWATNCND 21 (26)
T ss_dssp CEETTTTEESSCGGGCCT
T ss_pred ccchHHHHhCcccccCCc
Confidence 589999999999999975
No 40
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=51.80 E-value=4.4 Score=25.48 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=14.6
Q ss_pred CccccccCCCCcCCCCCCC
Q 011506 249 AQVCLKCGDSGHDMFSCRN 267 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~ 267 (484)
+..|..|...||...+|..
T Consensus 3 RpYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCND 21 (26)
T ss_dssp -CEETTTTEESSCGGGCCT
T ss_pred CccchHHHHhCcccccCCc
Confidence 4678888888888888864
No 41
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Probab=51.70 E-value=16 Score=27.24 Aligned_cols=45 Identities=31% Similarity=0.638 Sum_probs=25.0
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
...|..|+..|.+ +.|-.|....|+.|..+. ......++|..|..
T Consensus 9 ~~~C~vC~~~g~l---------------l~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~ 55 (61)
T 1mm2_A 9 MEFCRVCKDGGEL---------------LCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55 (61)
T ss_dssp CSSCTTTCCCSSC---------------BCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTT
T ss_pred CCcCCCCCCCCCE---------------EEcCCCCHHHcccccCCCcCcCCCCccCChhhcC
Confidence 4567777765422 456667777777765532 22233455666543
No 42
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=48.40 E-value=23 Score=28.72 Aligned_cols=46 Identities=33% Similarity=0.543 Sum_probs=24.8
Q ss_pred CCccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 248 NAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 248 ~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
+...|..|+..|.+ +.|-.|....|+.|..+. ..+...+.|..|-.
T Consensus 24 n~~~C~vC~~~g~L---------------L~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~ 71 (88)
T 1fp0_A 24 SATICRVCQKPGDL---------------VMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 71 (88)
T ss_dssp SSSCCSSSCSSSCC---------------EECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred CCCcCcCcCCCCCE---------------EECCCCCCceecccCCCCCCCCcCCCcCCccccC
Confidence 34567777766532 356666666677665332 22233455555543
No 43
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}
Probab=46.48 E-value=11 Score=27.84 Aligned_cols=43 Identities=30% Similarity=0.636 Sum_probs=23.7
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeecc
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRC 306 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynC 306 (484)
...|..|+..|. .+.|-.|....|+.|..+. ..+....+|..|
T Consensus 5 ~~~C~vC~~~g~---------------ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C 49 (60)
T 2puy_A 5 EDFCSVCRKSGQ---------------LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49 (60)
T ss_dssp CSSCTTTCCCSS---------------CEECSSSSCEECGGGSSSCCSSCCCSCCCCHHH
T ss_pred CCCCcCCCCCCc---------------EEEcCCCCcCEECCcCCCCcCCCCCCceEChhc
Confidence 456777776542 2456667777777766532 222334555555
No 44
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=45.70 E-value=7.4 Score=32.55 Aligned_cols=39 Identities=31% Similarity=0.667 Sum_probs=22.4
Q ss_pred ccccccccc--------cccccc------ccccccCCCCcccccCCC---cCcccCCC
Q 011506 181 QTCYNCGEE--------GHMAVN------CRSAVKRKKPCFVCGSLE---HGVRQCSK 221 (484)
Q Consensus 181 ~~C~~Cg~~--------GH~a~~------Cp~~~~~~~~C~~CG~~G---H~ar~C~~ 221 (484)
..|.-|... .|..++ ||.. +..+|-.||..| |..+.||.
T Consensus 37 ~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPvL--R~Y~CpiCGATGd~AHT~kYCP~ 92 (106)
T 3alr_A 37 KFCSFCKHNGETEAVYTSHYLKNRDGDVMCPYL--RQYKCPLCGATGAKAHTKRFCPM 92 (106)
T ss_dssp -CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTTG--GGCCCTTTCCCGGGCCCGGGCTT
T ss_pred CEeECCCCCCcccCccccceeECCCCCCcCCCc--ccccCCCCCCcCCcccceecCCC
Confidence 446666543 477676 6664 456666666665 55555553
No 45
>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A
Probab=42.46 E-value=14 Score=27.92 Aligned_cols=31 Identities=26% Similarity=0.518 Sum_probs=15.7
Q ss_pred cccccccCCCCccccccC--CCCCCCceeeccC
Q 011506 277 VQCYICRCFGHLCCVNIS--DAVPGEVSCFRCG 307 (484)
Q Consensus 277 ~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg 307 (484)
+.|-.|....|+.|..+. ..+...++|..|.
T Consensus 21 l~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~ 53 (66)
T 1xwh_A 21 ICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 53 (66)
T ss_dssp EECSSCCCEECTTTSSSCCSSCCSSCCCCHHHH
T ss_pred EEcCCCChhhcccccCCCcCcCCCCCeECcccc
Confidence 455666666677665432 2222345555553
No 46
>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=34.92 E-value=30 Score=27.98 Aligned_cols=16 Identities=25% Similarity=0.472 Sum_probs=8.8
Q ss_pred cccccccCCCCccccc
Q 011506 277 VQCYICRCFGHLCCVN 292 (484)
Q Consensus 277 ~~C~~C~~~GH~~c~~ 292 (484)
+.|-.|....|+.|..
T Consensus 32 l~CD~C~~~~H~~Cl~ 47 (92)
T 2e6r_A 32 LFCDGCDDNYHIFCLL 47 (92)
T ss_dssp EECTTTCCEECSSSSS
T ss_pred EEcCCCCchhccccCC
Confidence 4555555556665544
No 47
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Probab=32.62 E-value=1.9 Score=44.26 Aligned_cols=66 Identities=20% Similarity=0.248 Sum_probs=50.4
Q ss_pred CCCCCCcccccCCCccccCcccCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCccCCCCC
Q 011506 378 PHDLGKVHKRKKTQHEERGIMTSRKSKQRGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 448 (484)
Q Consensus 378 ~~d~~k~~k~~k~~~ee~~~~~p~~s~sRGgw~~~~~~d~~~~~~~~~~~~sp~TP~~~~~~~~~~~~~~~ 448 (484)
...+.++.++.....+..+...|.+..+ |...+..+....+.++.||..| ||.|... ++.+.+|.+
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~---f~~~~l~~~l~~~l~~~g~~~p-t~iQ~~a-i~~i~~g~d 95 (434)
T 2db3_A 30 IASGIHFSKYNNIPVKVTGSDVPQPIQH---FTSADLRDIIIDNVNKSGYKIP-TPIQKCS-IPVISSGRD 95 (434)
T ss_dssp CCCCTTGGGGGGSCEEEESSSCCCCCCC---GGGSCCCHHHHHHHHHTTCCSC-CHHHHHH-HHHHHTTCC
T ss_pred cccccChhhhcCceeEecCCCCCCCcCC---hhhcCCCHHHHHHHHHcCCCCC-CHHHHHH-HHHHhcCCC
Confidence 3455667777777777777777776666 8777777777788889999999 9999998 887776654
No 48
>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}
Probab=29.43 E-value=23 Score=28.45 Aligned_cols=50 Identities=24% Similarity=0.439 Sum_probs=30.4
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQ 308 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~ 308 (484)
...|..|+..|=. .....+.|-.|....|+.|..+...+...++|..|..
T Consensus 25 ~~~C~vC~~~~s~----------~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~ 74 (88)
T 2l43_A 25 DAVCSICMDGESQ----------NSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ 74 (88)
T ss_dssp CCCCSSCCSSSSC----------SEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHH
T ss_pred CCcCCcCCCCCCC----------CCCCEEECCCCCchhhcccCCCCccCCCceECccccC
Confidence 4677777765410 0113467778888888887665544445677777643
No 49
>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A
Probab=29.33 E-value=35 Score=30.76 Aligned_cols=45 Identities=27% Similarity=0.519 Sum_probs=23.9
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
...|..|+..|.+ +.|-.|...-|+.|..+. ..+...+.|..|..
T Consensus 4 ~~~C~~C~~~g~l---------------l~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~ 50 (184)
T 3o36_A 4 EDWCAVCQNGGEL---------------LCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRD 50 (184)
T ss_dssp CSSCTTTCCCSSC---------------EECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSC
T ss_pred CCccccCCCCCee---------------eecCCCCcccCccccCCCCCCCCCCCEECccccC
Confidence 3457777655532 356666666777665332 12233455655544
No 50
>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=28.95 E-value=13 Score=25.91 Aligned_cols=20 Identities=25% Similarity=0.529 Sum_probs=16.6
Q ss_pred CCceeeccCCCCCCCCCCCC
Q 011506 299 GEVSCFRCGQLGHTGLACAR 318 (484)
Q Consensus 299 ~~~~CynCg~~GH~~~dCp~ 318 (484)
...+|-+|-..||...+|..
T Consensus 19 eRpYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 19 ERPYCEICEMFGHWATNCND 38 (42)
T ss_dssp --CEETTTTEESSCGGGCCT
T ss_pred CCcccccccccCcccccCCc
Confidence 34799999999999999975
No 51
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*
Probab=28.51 E-value=27 Score=32.19 Aligned_cols=47 Identities=26% Similarity=0.549 Sum_probs=27.7
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCCCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQLG 310 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~~G 310 (484)
...|..|+..|. -+.|-.|...-|+.|..+. ..+...+.|..|-..+
T Consensus 7 ~~~C~~C~~~g~---------------ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 55 (207)
T 3u5n_A 7 EDWCAVCQNGGD---------------LLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG 55 (207)
T ss_dssp CSSBTTTCCCEE---------------EEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred CCCCCCCCCCCc---------------eEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence 356777776553 2456667777787775432 2233456777776654
No 52
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=27.09 E-value=33 Score=24.17 Aligned_cols=33 Identities=27% Similarity=0.536 Sum_probs=19.6
Q ss_pred ccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 276 EVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 276 ~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
.+.|-.|....|+.|..+. ..+....+|..|..
T Consensus 15 ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~ 49 (51)
T 1f62_A 15 LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP 49 (51)
T ss_dssp CEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred EEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence 3567778877788776432 22233566666643
No 53
>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=26.36 E-value=19 Score=25.08 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=15.0
Q ss_pred CCccccccCCCCcCCCCCCC
Q 011506 248 NAQVCLKCGDSGHDMFSCRN 267 (484)
Q Consensus 248 ~~~~C~~Cg~~GH~~~dCp~ 267 (484)
.+..|..|...||.+.+|..
T Consensus 19 eRpYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 19 ERPYCEICEMFGHWATNCND 38 (42)
T ss_dssp --CEETTTTEESSCGGGCCT
T ss_pred CCcccccccccCcccccCCc
Confidence 35788888888888888864
No 54
>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}
Probab=26.23 E-value=47 Score=30.29 Aligned_cols=44 Identities=32% Similarity=0.542 Sum_probs=24.5
Q ss_pred ccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 250 QVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 250 ~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
..|..|+..|++ +.|-.|...-|+.|..+. ..+...+.|..|..
T Consensus 3 ~~C~~C~~~g~l---------------l~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~ 48 (189)
T 2ro1_A 3 TICRVCQKPGDL---------------VMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 48 (189)
T ss_dssp CCBTTTCCCSSC---------------CCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSC
T ss_pred CcCccCCCCCce---------------eECCCCCchhccccCCCCcccCCCCCCCCcCccC
Confidence 457777766642 346667777777765432 22334455665543
No 55
>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}
Probab=25.12 E-value=42 Score=25.48 Aligned_cols=45 Identities=22% Similarity=0.461 Sum_probs=29.3
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC--CCCCCCceeeccCC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~--~~~~~~~~CynCg~ 308 (484)
...|..|+..|- .+.|-.|....|+.|..+. ..+...++|..|..
T Consensus 12 ~~~C~vC~~~~~---------------ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~ 58 (66)
T 2lri_C 12 GARCGVCGDGTD---------------VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSG 58 (66)
T ss_dssp TCCCTTTSCCTT---------------CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTT
T ss_pred CCCcCCCCCCCe---------------EEECCCCCCceecccCCCccCcCCCCCEECccccC
Confidence 356888875431 3578888888898886533 33345677887754
No 56
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A
Probab=24.54 E-value=1.5e+02 Score=24.47 Aligned_cols=31 Identities=23% Similarity=0.447 Sum_probs=15.9
Q ss_pred CCcccccCCCcCccc-CC-CCccccccCCCCCC
Q 011506 204 KPCFVCGSLEHGVRQ-CS-KAQDCFICKKGGHR 234 (484)
Q Consensus 204 ~~C~~CG~~GH~ar~-C~-~~~~C~~C~~~GH~ 234 (484)
..|..|.+.+...+. =+ .-+.|..|+...|.
T Consensus 6 ~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~ 38 (112)
T 3v43_A 6 PICSFCLGTKEQNREKKPEELISCADCGNSGHP 38 (112)
T ss_dssp SSBTTTCCCTTCCTTSCCCCCEECTTTCCEECH
T ss_pred ccccccCCchhhCcCCCchhceEhhhcCCCCCC
Confidence 466777665432211 11 13456667776665
No 57
>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}
Probab=21.62 E-value=37 Score=26.13 Aligned_cols=49 Identities=22% Similarity=0.430 Sum_probs=30.1
Q ss_pred CccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccC
Q 011506 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCG 307 (484)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg 307 (484)
...|..|+..+-. .....+.|-.|....|+.|..+...+...++|..|.
T Consensus 16 ~~~C~vC~~~~s~----------~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~ 64 (71)
T 2ku3_A 16 DAVCSICMDGESQ----------NSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCL 64 (71)
T ss_dssp SCSCSSSCCCCCC----------SSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHH
T ss_pred CCCCCCCCCCCCC----------CCCCEEECCCCCCccccccCCCCcCCCCCcCCccCc
Confidence 4677777765410 011346788888888888776554444566776663
No 58
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=21.32 E-value=29 Score=24.26 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=16.4
Q ss_pred CCccccccCCCCcCCCCCCC
Q 011506 248 NAQVCLKCGDSGHDMFSCRN 267 (484)
Q Consensus 248 ~~~~C~~Cg~~GH~~~dCp~ 267 (484)
.+..|..|-..||...+|..
T Consensus 19 eRpYCe~CEVFGH~t~eC~d 38 (42)
T 3e2u_E 19 ERPYCEICEMFGHWATNCND 38 (42)
T ss_dssp -CCEETTTTEESSCGGGCCT
T ss_pred cCcccccceecccccccCCc
Confidence 36789999999999999975
No 59
>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}
Probab=21.03 E-value=44 Score=24.82 Aligned_cols=33 Identities=21% Similarity=0.208 Sum_probs=19.1
Q ss_pred ccccccccCCCCccccccCCC-----CCCCceeeccCC
Q 011506 276 EVQCYICRCFGHLCCVNISDA-----VPGEVSCFRCGQ 308 (484)
Q Consensus 276 ~~~C~~C~~~GH~~c~~~~~~-----~~~~~~CynCg~ 308 (484)
.+.|-.|....|+.|..+... ....++|..|-.
T Consensus 23 ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~ 60 (66)
T 2yt5_A 23 MVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVF 60 (66)
T ss_dssp EEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHH
T ss_pred EEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcC
Confidence 356777777777776554221 234466666643
No 60
>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.87 E-value=1.2e+02 Score=23.65 Aligned_cols=31 Identities=23% Similarity=0.464 Sum_probs=16.6
Q ss_pred cccccccCCCCccccccC--CCCCC-CceeeccC
Q 011506 277 VQCYICRCFGHLCCVNIS--DAVPG-EVSCFRCG 307 (484)
Q Consensus 277 ~~C~~C~~~GH~~c~~~~--~~~~~-~~~CynCg 307 (484)
+.|-.|....|+.|..+. ..+.. ..+|..|.
T Consensus 42 l~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~ 75 (77)
T 2e6s_A 42 LLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCK 75 (77)
T ss_dssp EECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTC
T ss_pred EEcCCCCccccccccCCCccCCCCCCCcCCcCcc
Confidence 456666666777665532 22222 45666553
Done!