Query 011182
Match_columns 491
No_of_seqs 343 out of 1840
Neff 5.9
Searched_HMMs 29240
Date Mon Mar 25 22:29:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011182.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011182hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2lli_A Protein AIR2; RNA surve 99.9 1.9E-22 6.6E-27 178.6 10.8 81 180-270 4-85 (124)
2 2lli_A Protein AIR2; RNA surve 99.9 4.1E-22 1.4E-26 176.5 10.5 108 202-354 3-124 (124)
3 3nyb_B Protein AIR2; polya RNA 99.4 4.8E-14 1.6E-18 116.5 4.0 47 297-356 21-67 (83)
4 3nyb_B Protein AIR2; polya RNA 99.3 1.5E-12 5.2E-17 107.6 3.8 60 205-269 7-66 (83)
5 2li8_A Protein LIN-28 homolog 99.1 1.3E-10 4.5E-15 94.0 5.7 44 299-355 23-66 (74)
6 2li8_A Protein LIN-28 homolog 99.0 8.5E-11 2.9E-15 95.1 3.1 65 189-269 2-66 (74)
7 2a51_A Nucleocapsid protein; s 98.9 5.2E-10 1.8E-14 79.3 4.2 39 301-353 1-39 (39)
8 2a51_A Nucleocapsid protein; s 98.9 4.1E-10 1.4E-14 79.9 3.0 38 181-220 1-38 (39)
9 1a1t_A Nucleocapsid protein; s 98.9 1.6E-10 5.6E-15 87.9 0.7 40 180-221 12-51 (55)
10 2bl6_A Nucleocapsid protein P1 98.9 6.5E-10 2.2E-14 77.9 3.3 37 301-353 1-37 (37)
11 2ec7_A GAG polyprotein (PR55GA 98.9 1.7E-09 5.7E-14 80.5 4.9 43 299-355 5-47 (49)
12 2cqf_A RNA-binding protein LIN 98.8 3.8E-09 1.3E-13 82.7 6.0 44 300-356 7-50 (63)
13 2ec7_A GAG polyprotein (PR55GA 98.8 2.4E-09 8.3E-14 79.7 3.7 40 180-221 6-45 (49)
14 2ihx_A Nucleocapsid (NC) prote 98.8 3.4E-09 1.2E-13 82.4 4.6 49 300-357 4-52 (61)
15 2cqf_A RNA-binding protein LIN 98.8 3.3E-09 1.1E-13 83.0 3.9 42 181-242 8-49 (63)
16 1a1t_A Nucleocapsid protein; s 98.8 4.1E-09 1.4E-13 80.1 3.8 43 299-355 11-53 (55)
17 2bl6_A Nucleocapsid protein P1 98.8 3E-09 1E-13 74.5 2.7 16 183-198 3-18 (37)
18 2ihx_A Nucleocapsid (NC) prote 98.7 4.8E-09 1.6E-13 81.5 3.0 47 180-242 4-50 (61)
19 1cl4_A Protein (GAG polyprotei 98.7 3.9E-09 1.3E-13 81.6 2.4 49 301-356 2-51 (60)
20 1cl4_A Protein (GAG polyprotei 98.7 3.8E-09 1.3E-13 81.7 1.8 49 181-242 2-50 (60)
21 3ts2_A Protein LIN-28 homolog 98.5 4.2E-08 1.5E-12 89.3 4.1 44 300-356 97-140 (148)
22 3ts2_A Protein LIN-28 homolog 98.5 4.4E-08 1.5E-12 89.1 3.0 40 180-220 97-136 (148)
23 1dsq_A Nucleic acid binding pr 97.5 3.5E-05 1.2E-09 49.7 2.3 21 335-355 2-22 (26)
24 1nc8_A Nucleocapsid protein; H 97.4 5.9E-05 2E-09 49.8 1.8 20 180-199 6-25 (29)
25 1dsq_A Nucleic acid binding pr 97.4 5.2E-05 1.8E-09 48.9 1.4 19 181-199 3-21 (26)
26 1a6b_B Momulv, zinc finger pro 97.4 0.00013 4.3E-09 52.0 3.4 24 333-356 8-31 (40)
27 1nc8_A Nucleocapsid protein; H 97.3 9.3E-05 3.2E-09 48.8 2.0 21 335-355 6-26 (29)
28 1u6p_A GAG polyprotein; MLV, A 97.0 0.0004 1.4E-08 52.9 3.5 25 333-357 21-45 (56)
29 1a6b_B Momulv, zinc finger pro 97.0 0.00028 9.7E-09 50.1 1.9 20 180-199 10-29 (40)
30 1u6p_A GAG polyprotein; MLV, A 96.6 0.001 3.5E-08 50.7 2.7 21 179-199 22-42 (56)
31 2ysa_A Retinoblastoma-binding 96.1 0.0028 9.6E-08 48.1 2.7 21 335-355 7-27 (55)
32 2ysa_A Retinoblastoma-binding 95.9 0.003 1E-07 47.9 2.1 20 180-199 7-26 (55)
33 2db3_A ATP-dependent RNA helic 89.3 0.019 6.7E-07 59.4 -4.2 70 381-455 26-95 (434)
34 2ysm_A Myeloid/lymphoid or mix 75.4 3.4 0.00012 34.7 4.9 31 251-293 56-86 (111)
35 2ysm_A Myeloid/lymphoid or mix 54.1 11 0.00039 31.4 4.0 15 277-291 23-37 (111)
36 2hqh_E Restin; beta/BETA struc 52.6 4.2 0.00014 25.9 0.7 19 249-267 3-21 (26)
37 2bl5_A MGC83862 protein, quaki 45.7 1.9 6.6E-05 38.4 -2.3 68 106-173 36-120 (140)
38 2l5u_A Chromodomain-helicase-D 45.3 8.8 0.0003 28.9 1.7 46 249-309 11-58 (61)
39 1wrb_A DJVLGB; RNA helicase, D 41.7 8 0.00027 36.0 1.2 59 392-455 2-62 (253)
40 3alr_A Nanos protein; zinc-fin 39.4 11 0.00036 31.9 1.4 18 250-267 72-92 (106)
41 1mm2_A MI2-beta; PHD, zinc fin 37.6 43 0.0015 25.0 4.5 44 249-307 9-54 (61)
42 2yql_A PHD finger protein 21A; 36.6 25 0.00085 25.7 3.0 44 248-306 8-53 (56)
43 2puy_A PHD finger protein 21A; 33.4 26 0.00089 26.0 2.6 43 249-306 5-49 (60)
44 3alr_A Nanos protein; zinc-fin 32.6 14 0.00047 31.2 1.0 38 181-220 37-91 (106)
45 2e6r_A Jumonji/ARID domain-con 30.4 42 0.0014 27.3 3.6 30 277-306 32-63 (92)
46 1mm2_A MI2-beta; PHD, zinc fin 27.8 98 0.0034 22.9 5.1 49 274-343 7-55 (61)
47 2lri_C Autoimmune regulator; Z 27.3 44 0.0015 25.6 3.0 45 249-308 12-58 (66)
48 2pzo_E CAP-Gly domain-containi 26.6 19 0.00064 25.4 0.7 19 249-267 20-38 (42)
49 1fp0_A KAP-1 corepressor; PHD 26.5 1E+02 0.0034 25.1 5.2 59 233-306 9-69 (88)
50 1xwh_A Autoimmune regulator; P 26.2 39 0.0013 25.6 2.5 46 246-306 5-52 (66)
51 2puy_A PHD finger protein 21A; 24.4 41 0.0014 24.8 2.3 47 274-341 3-49 (60)
52 1f62_A Transcription factor WS 24.3 52 0.0018 23.3 2.8 32 276-307 15-48 (51)
53 3v43_A Histone acetyltransfera 24.1 2.8E+02 0.0097 22.8 7.9 12 223-234 27-38 (112)
54 2yuc_A TNF receptor-associated 23.6 1.2E+02 0.004 22.9 5.0 21 232-259 34-54 (76)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.87 E-value=1.9e-22 Score=178.59 Aligned_cols=81 Identities=32% Similarity=0.742 Sum_probs=74.2
Q ss_pred ccccccccccCcccccccccccCCCCcceeecC-CCCcccCCCCccccccccCCCCCCCCCCccCCCCcCCcccccCCCC
Q 011182 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSL-EHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~-GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~ 258 (491)
.+.||+|++.||++++||.. .|++||+. ||++++||....||+|++.||++++||.... ...|++|++.
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 46799999999999999995 89999998 9999999988899999999999999998643 4789999999
Q ss_pred CcCCCCCCCCCC
Q 011182 259 GHDMFSCRNSYS 270 (491)
Q Consensus 259 GH~~~dCp~~~~ 270 (491)
||++++||..|.
T Consensus 74 GH~~~~Cp~~~~ 85 (124)
T 2lli_A 74 KHSKERCPSIWR 85 (124)
T ss_dssp CCCTTTCCCSTT
T ss_pred CcchhhCCCccc
Confidence 999999998764
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.87 E-value=4.1e-22 Score=176.46 Aligned_cols=108 Identities=28% Similarity=0.661 Sum_probs=81.5
Q ss_pred CCCCcceeecCCCCcccCCCCccccccccC-CCCCCCCCCccCCCCcCCcccccCCCCCcCCCCCCCCCCCCcccccccc
Q 011182 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKG-GHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCY 280 (491)
Q Consensus 202 ~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~-GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~ 280 (491)
+...|++|++.||++++|| ...||+|++. ||++++||.. ..|++|++.||++.+||..+ ..
T Consensus 3 ~~~~C~~C~~~GH~~~~Cp-~~~C~~Cg~~~gH~~~~C~~~--------~~C~~Cg~~GH~~~~C~~~~-----~~---- 64 (124)
T 2lli_A 3 AAPKCNNCSQRGHLKKDCP-HIICSYCGATDDHYSRHCPKA--------IQCSKCDEVGHYRSQCPHKW-----KK---- 64 (124)
T ss_dssp CSSCCSSCSSSSCCTTTTT-SCCCTTTCCTTTCCTTTGGGS--------SCSSSSSCSSSSTTTSCCCC-----CC----
T ss_pred CCCcccCCCCCCcCcccCc-CCcCcCCCCcCCccCcccCCc--------ccccccCCCCCccccCcCcc-----cC----
Confidence 3467999999999999999 4689999998 9999999873 67999999999999998753 12
Q ss_pred ccCCCCcccccCcCCCCCCCcccccCCCCCCCCcccccccccccccCCC-------------CCCCCCCCcccCCCCCCC
Q 011182 281 ICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLHWNSCMQACARSRGE-------------TVEASPSSCYNCGAEGHF 347 (491)
Q Consensus 281 ~Cg~~GHl~c~~~~~~~~~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~-------------~~~~~~~~Cy~Cg~~GH~ 347 (491)
+.||+|++.||+++ +||..... ..+...+.||+|++.|||
T Consensus 65 --------------------~~C~~Cg~~GH~~~-------~Cp~~~~~y~~~~~~~~~~~~~~~~~~~~Cy~Cg~~GH~ 117 (124)
T 2lli_A 65 --------------------VQCTLCKSKKHSKE-------RCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHF 117 (124)
T ss_dssp --------------------CSSSSSCSSCCCTT-------TCCCSTTSCCSSSCCCCCCCSCCCCCCCCTTTTSSSCTT
T ss_pred --------------------ccCCCCCcCCcchh-------hCCCccccccccCccccccccccCCCCCCcCCCCCCCcC
Confidence 34555555555555 55543221 112346899999999999
Q ss_pred cCcCCCc
Q 011182 348 ARECVSS 354 (491)
Q Consensus 348 ardCp~~ 354 (491)
++|||+.
T Consensus 118 a~dCp~~ 124 (124)
T 2lli_A 118 GDDCKEK 124 (124)
T ss_dssp TTTSCCC
T ss_pred cccCcCC
Confidence 9999963
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.43 E-value=4.8e-14 Score=116.54 Aligned_cols=47 Identities=21% Similarity=0.442 Sum_probs=27.1
Q ss_pred CCCCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCccc
Q 011182 297 VPGEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSSK 356 (491)
Q Consensus 297 ~~~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~~ 356 (491)
||..+.||+|++.||+++ +|+.+ ...+.||+||+.|||++|||+.+.
T Consensus 21 Cp~~~rcY~c~~~gh~~~-------~c~~p------~~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 21 CPSIWRAYILVDDNEKAK-------PKVLP------FHTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp CGGGTCCCCBC--------------------------CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred CCCcccccccccCCcccc-------cccCC------CCCCeecccCCCCcCcccCCcccc
Confidence 333357888888889888 88753 236899999999999999998763
No 4
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.27 E-value=1.5e-12 Score=107.56 Aligned_cols=60 Identities=23% Similarity=0.484 Sum_probs=27.5
Q ss_pred CcceeecCCCCcccCCCCccccccccCCCCCCCCCCccCCCCcCCcccccCCCCCcCCCCCCCCC
Q 011182 205 PCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSY 269 (491)
Q Consensus 205 ~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~~ 269 (491)
.|++|++.||++++||....||+|+..||++++|+.+. ..+.||+||+.||+.++||+.+
T Consensus 7 ~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~-----~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 7 QCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPF-----HTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CCSSSCCSSSCGGGCGGGTCCCCBC------------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred CCCCCCCCCCccccCCCcccccccccCCcccccccCCC-----CCCeecccCCCCcCcccCCccc
Confidence 34444444444444443345666666666666665532 2467777777777777777653
No 5
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.07 E-value=1.3e-10 Score=93.96 Aligned_cols=44 Identities=25% Similarity=0.646 Sum_probs=37.7
Q ss_pred CCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCcc
Q 011182 299 GEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 299 ~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
..+.||+|++.||+++ +|+... ....||+|++.||++++||...
T Consensus 23 r~~~C~~Cg~~GH~a~-------~C~~~~------~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAK-------ECKLPP------QPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp TTSCCTTTCCSSSCTT-------TCSSCC------CCCCCTTTCCTTSCGGGCTTGG
T ss_pred CCCcccccCCcCcCcc-------cCCCCC------CCCccCCcCCcCCccCcCcCCc
Confidence 3478999999999999 998642 2578999999999999999865
No 6
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.03 E-value=8.5e-11 Score=95.06 Aligned_cols=65 Identities=22% Similarity=0.384 Sum_probs=35.1
Q ss_pred cCcccccccccccCCCCcceeecCCCCcccCCCCccccccccCCCCCCCCCCccCCCCcCCcccccCCCCCcCCCCCCCC
Q 011182 189 EGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (491)
Q Consensus 189 ~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~ 268 (491)
.||++++|+.+.... +.+.=.....||+|++.||++++||.... ...||+|++.||++++||..
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 589999999862110 00000124568888888888888886432 46788888888888888875
Q ss_pred C
Q 011182 269 Y 269 (491)
Q Consensus 269 ~ 269 (491)
.
T Consensus 66 ~ 66 (74)
T 2li8_A 66 A 66 (74)
T ss_dssp G
T ss_pred c
Confidence 3
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=98.94 E-value=5.2e-10 Score=79.34 Aligned_cols=39 Identities=38% Similarity=1.028 Sum_probs=34.5
Q ss_pred cccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCC
Q 011182 301 VSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVS 353 (491)
Q Consensus 301 ~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~ 353 (491)
+.||+|++.||+++ +|+..+ ...||+|++.||++++||+
T Consensus 1 i~C~~Cg~~GH~a~-------~C~~~~-------~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 1 LTCFNCGKPGHTAR-------MCRQPR-------QEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CBCTTTCCBSSCTT-------TCCSCC-------CSSCTTTCCSSSCTTTSCC
T ss_pred CeeeccCCCCcccc-------cCCCCC-------CCccccCCCCCCccCcCcC
Confidence 47999999999999 998742 4789999999999999985
No 8
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=98.92 E-value=4.1e-10 Score=79.87 Aligned_cols=38 Identities=50% Similarity=1.109 Sum_probs=27.3
Q ss_pred cccccccccCcccccccccccCCCCcceeecCCCCcccCC
Q 011182 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (491)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp 220 (491)
+.||+||+.||++++||.+ +...|++||+.||++++||
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 3689999999999999875 3345666666666666665
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=98.92 E-value=1.6e-10 Score=87.86 Aligned_cols=40 Identities=48% Similarity=1.145 Sum_probs=29.6
Q ss_pred ccccccccccCcccccccccccCCCCcceeecCCCCcccCCC
Q 011182 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~ 221 (491)
...||+||+.||++++||.+ +...|++||+.||++++||.
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 46799999999999999885 33456666666666666663
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.90 E-value=6.5e-10 Score=77.94 Aligned_cols=37 Identities=38% Similarity=1.120 Sum_probs=33.3
Q ss_pred cccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCC
Q 011182 301 VSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVS 353 (491)
Q Consensus 301 ~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~ 353 (491)
+.||+|++.||+++ +|+. +..||+|++.||++++||+
T Consensus 1 ~~C~~Cg~~GH~~~-------~C~~---------~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 1 QTCYNCGKPGHLSS-------QCRA---------PKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CCBSSSCCSSCCTT-------TSSC---------BTTCSSCCCTTGGGGTTCC
T ss_pred CcccccCCCCcchh-------hCcC---------cCeEccCCCcCCccCcCcC
Confidence 36999999999999 9986 4789999999999999985
No 11
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=98.87 E-value=1.7e-09 Score=80.52 Aligned_cols=43 Identities=30% Similarity=0.898 Sum_probs=37.2
Q ss_pred CCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCcc
Q 011182 299 GEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 299 ~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
..+.||+|++.||+++ +|+..+ ...||+|++.||++++||.+.
T Consensus 5 r~~~C~~Cg~~GH~a~-------~C~~~~-------~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSAR-------QCRAPR-------RQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CCCBCTTTCCBTCCTT-------TCCCSS-------CCSCSSSCCSSCCGGGCCSSC
T ss_pred CcCeeeecCCCCcChh-------hCcCCC-------CCeeCcCCCcCCccCCCcCCC
Confidence 3478999999999999 998742 468999999999999999764
No 12
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=98.84 E-value=3.8e-09 Score=82.69 Aligned_cols=44 Identities=25% Similarity=0.665 Sum_probs=37.8
Q ss_pred CcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCccc
Q 011182 300 EVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSSK 356 (491)
Q Consensus 300 ~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~~ 356 (491)
...||+|++.||+++ +|+... ....||+|++.||++++||....
T Consensus 7 ~~~C~~Cg~~GH~a~-------~C~~~~------~~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAK-------ECKLPP------QPKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp CCCCSSSCCSSSCTT-------TCCSCC------CSSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCcccccCCCCcChh-------hCCCCC------CCCccCCcCCcCCccCcCCCccc
Confidence 478999999999999 998642 25789999999999999998753
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=98.80 E-value=2.4e-09 Score=79.65 Aligned_cols=40 Identities=40% Similarity=1.021 Sum_probs=28.5
Q ss_pred ccccccccccCcccccccccccCCCCcceeecCCCCcccCCC
Q 011182 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK 221 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~ 221 (491)
.+.||+||+.||++++||.+ +...|++||+.||++++||.
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 46799999999999999885 33456666666666666653
No 14
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.80 E-value=3.4e-09 Score=82.36 Aligned_cols=49 Identities=29% Similarity=0.641 Sum_probs=38.8
Q ss_pred CcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCcccc
Q 011182 300 EVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSSKV 357 (491)
Q Consensus 300 ~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~~~ 357 (491)
.+.||+|++.||+++ +|+...... .....||+|++.||++++||.....
T Consensus 4 ~~~C~~Cg~~GH~a~-------~C~~~~~~~--~~~~~C~~Cg~~GH~ar~C~~~~~~ 52 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQA-------QCPKKRKSG--NSRERCQLCNGMGHNAKQCRKRDGN 52 (61)
T ss_dssp TTBCSSSCCBTCCGG-------GCTTTTSSS--CCCSBCTTTCCBSSCGGGCCCCC--
T ss_pred CCcccccCCCCeehh-------hCcCCcCCC--CCCCeeCCCCCCCCCcCCCcCCCcC
Confidence 478999999999999 998754321 1257899999999999999987643
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=98.78 E-value=3.3e-09 Score=83.05 Aligned_cols=42 Identities=33% Similarity=0.823 Sum_probs=28.4
Q ss_pred cccccccccCcccccccccccCCCCcceeecCCCCcccCCCCccccccccCCCCCCCCCCcc
Q 011182 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242 (491)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~ 242 (491)
..||+|++.||++++||.+ .. ...||+|++.||++++||...
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~-~~-------------------~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLP-PQ-------------------PKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSC-CC-------------------SSCCTTTCCSSSCTTTCTGGG
T ss_pred CcccccCCCCcChhhCCCC-CC-------------------CCccCCcCCcCCccCcCCCcc
Confidence 5688888888888888874 12 345666666666666666643
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=98.76 E-value=4.1e-09 Score=80.07 Aligned_cols=43 Identities=37% Similarity=0.987 Sum_probs=37.0
Q ss_pred CCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCcc
Q 011182 299 GEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 299 ~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
..+.||+|++.||+++ +|+..+ ...||+|++.||++++||...
T Consensus 11 ~~~~C~~Cg~~GH~a~-------~C~~~~-------~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAK-------NCRAPR-------KKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp GTCBCTTTCCBSSCGG-------GCSSCS-------CCBCTTTCCBSSCGGGCSSSC
T ss_pred CCcceeeeCCCCcChh-------hcCCCC-------CCEeCCCCCcCCccCCCcCcC
Confidence 3478999999999999 998742 468999999999999999764
No 17
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.75 E-value=3e-09 Score=74.50 Aligned_cols=16 Identities=56% Similarity=1.568 Sum_probs=8.2
Q ss_pred cccccccCcccccccc
Q 011182 183 CYNCGEEGHMAVNCRS 198 (491)
Q Consensus 183 C~~CG~~GH~a~~Cp~ 198 (491)
||+||+.||++++||.
T Consensus 3 C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 3 CYNCGKPGHLSSQCRA 18 (37)
T ss_dssp BSSSCCSSCCTTTSSC
T ss_pred ccccCCCCcchhhCcC
Confidence 5555555555555544
No 18
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=98.72 E-value=4.8e-09 Score=81.52 Aligned_cols=47 Identities=32% Similarity=0.792 Sum_probs=33.1
Q ss_pred ccccccccccCcccccccccccCCCCcceeecCCCCcccCCCCccccccccCCCCCCCCCCcc
Q 011182 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~ 242 (491)
...||+|++.||++++||.+.... .....||+|++.||++++||...
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 467999999999999999862111 11356777777777777777654
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=98.71 E-value=3.9e-09 Score=81.60 Aligned_cols=49 Identities=35% Similarity=0.756 Sum_probs=20.0
Q ss_pred cccccCCCCCCCCcccccccccccccCCCCCC-CCCCCcccCCCCCCCcCcCCCccc
Q 011182 301 VSCFRCGQLGHTGLHWNSCMQACARSRGETVE-ASPSSCYNCGAEGHFARECVSSSK 356 (491)
Q Consensus 301 ~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~-~~~~~Cy~Cg~~GH~ardCp~~~~ 356 (491)
..||+|++.||+++ +|+........ .....||+|++.||++++||....
T Consensus 2 ~~Cf~Cg~~GH~a~-------~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 2 GSCFKCGKKGHFAK-------NCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp ----------------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred CccccCCCCCcCHh-------hCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 36999999999999 99875432110 135789999999999999998763
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=98.69 E-value=3.8e-09 Score=81.66 Aligned_cols=49 Identities=33% Similarity=0.774 Sum_probs=17.1
Q ss_pred cccccccccCcccccccccccCCCCcceeecCCCCcccCCCCccccccccCCCCCCCCCCcc
Q 011182 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242 (491)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a~~Cp~~~ 242 (491)
..||+|++.||++++||....... . ......||+|++.||++++||...
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 469999999999999998621100 0 112467888888888888888764
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=98.53 E-value=4.2e-08 Score=89.25 Aligned_cols=44 Identities=25% Similarity=0.656 Sum_probs=37.9
Q ss_pred CcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCCCCCCcCcCCCccc
Q 011182 300 EVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGAEGHFARECVSSSK 356 (491)
Q Consensus 300 ~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~~GH~ardCp~~~~ 356 (491)
.+.||+|++.||+++ +|+.... +..||+|++.||++++||++.+
T Consensus 97 ~~~C~~Cg~~GH~a~-------~C~~~~~------~~~C~~Cg~~GH~~r~Cp~~~~ 140 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAK-------ECKLPPQ------PKKCHFCQSINHMVASCPLKAQ 140 (148)
T ss_dssp SCCCTTTCCSSCCGG-------GCCSCCC------CCCCTTTCCSSCCGGGCTTTTC
T ss_pred CCcccEeCCccchhh-------hCCCCCC------CCcccccCCcCCEeccCcCCCC
Confidence 478999999999999 9987432 5789999999999999998654
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=98.48 E-value=4.4e-08 Score=89.12 Aligned_cols=40 Identities=38% Similarity=0.844 Sum_probs=27.6
Q ss_pred ccccccccccCcccccccccccCCCCcceeecCCCCcccCC
Q 011182 180 WQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp 220 (491)
...||+||+.||++++||.+ .....|++||+.||++++||
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~-~~~~~C~~Cg~~GH~~r~Cp 136 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLP-PQPKKCHFCQSINHMVASCP 136 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSC-CCCCCCTTTCCSSCCGGGCT
T ss_pred CCcccEeCCccchhhhCCCC-CCCCcccccCCcCCEeccCc
Confidence 56799999999999999985 23344555555555555554
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=97.54 E-value=3.5e-05 Score=49.66 Aligned_cols=21 Identities=33% Similarity=1.020 Sum_probs=16.4
Q ss_pred CCCcccCCCCCCCcCcCCCcc
Q 011182 335 PSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 335 ~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
...||+||+.|||+++||.+.
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 357888888888888888764
No 24
>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=97.37 E-value=5.9e-05 Score=49.80 Aligned_cols=20 Identities=50% Similarity=1.124 Sum_probs=18.2
Q ss_pred ccccccccccCccccccccc
Q 011182 180 WQTCYNCGEEGHMAVNCRSA 199 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (491)
.+.|||||++||++++|+.+
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 46799999999999999987
No 25
>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=97.36 E-value=5.2e-05 Score=48.87 Aligned_cols=19 Identities=32% Similarity=1.153 Sum_probs=17.1
Q ss_pred cccccccccCccccccccc
Q 011182 181 QTCYNCGEEGHMAVNCRSA 199 (491)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~ 199 (491)
..||+||+.||++++||.+
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 5799999999999999986
No 26
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=97.36 E-value=0.00013 Score=51.95 Aligned_cols=24 Identities=25% Similarity=0.772 Sum_probs=20.1
Q ss_pred CCCCCcccCCCCCCCcCcCCCccc
Q 011182 333 ASPSSCYNCGAEGHFARECVSSSK 356 (491)
Q Consensus 333 ~~~~~Cy~Cg~~GH~ardCp~~~~ 356 (491)
.....||+|++.|||+++||.+..
T Consensus 8 ~~~~~C~~Cgk~GH~ardCP~~~~ 31 (40)
T 1a6b_B 8 LDRDQCAYCKEKGHWAKDCPKKPR 31 (40)
T ss_dssp CCSSSCSSSCCTTCCTTSCSSSCC
T ss_pred CCCCeeeECCCCCcchhhCcCCcc
Confidence 346789999999999999998764
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=97.29 E-value=9.3e-05 Score=48.84 Aligned_cols=21 Identities=48% Similarity=1.051 Sum_probs=15.5
Q ss_pred CCCcccCCCCCCCcCcCCCcc
Q 011182 335 PSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 335 ~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
...||+|++.||++++|+.++
T Consensus 6 ~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSS
T ss_pred CCEEEECCccccCHhHCcccc
Confidence 456888888888888887654
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=97.03 E-value=0.0004 Score=52.90 Aligned_cols=25 Identities=24% Similarity=0.698 Sum_probs=20.6
Q ss_pred CCCCCcccCCCCCCCcCcCCCcccc
Q 011182 333 ASPSSCYNCGAEGHFARECVSSSKV 357 (491)
Q Consensus 333 ~~~~~Cy~Cg~~GH~ardCp~~~~~ 357 (491)
.....||+||+.|||+++||.+...
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~~~ 45 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKPRG 45 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCCCS
T ss_pred CCCCcceeCCCCCcccccCcCCccc
Confidence 3457899999999999999987643
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=0.00028 Score=50.13 Aligned_cols=20 Identities=35% Similarity=0.787 Sum_probs=18.2
Q ss_pred ccccccccccCccccccccc
Q 011182 180 WQTCYNCGEEGHMAVNCRSA 199 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (491)
...||+||+.||++++||..
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 57899999999999999986
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=96.60 E-value=0.001 Score=50.68 Aligned_cols=21 Identities=33% Similarity=0.751 Sum_probs=18.7
Q ss_pred CccccccccccCccccccccc
Q 011182 179 GWQTCYNCGEEGHMAVNCRSA 199 (491)
Q Consensus 179 ~~~~C~~CG~~GH~a~~Cp~~ 199 (491)
....||+||+.|||+++||..
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 457899999999999999986
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=96.12 E-value=0.0028 Score=48.06 Aligned_cols=21 Identities=29% Similarity=1.032 Sum_probs=17.9
Q ss_pred CCCcccCCCCCCCcCcCCCcc
Q 011182 335 PSSCYNCGAEGHFARECVSSS 355 (491)
Q Consensus 335 ~~~Cy~Cg~~GH~ardCp~~~ 355 (491)
...||+||+.|||+++||...
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGGG
T ss_pred CCccccCCCcCcccccCCCCC
Confidence 568999999999999998554
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=95.95 E-value=0.003 Score=47.92 Aligned_cols=20 Identities=40% Similarity=0.966 Sum_probs=16.0
Q ss_pred ccccccccccCccccccccc
Q 011182 180 WQTCYNCGEEGHMAVNCRSA 199 (491)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (491)
...||+||++||++++||..
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 34689999999998888853
No 33
>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=89.31 E-value=0.019 Score=59.39 Aligned_cols=70 Identities=20% Similarity=0.252 Sum_probs=57.0
Q ss_pred CCCCCCcCCccccccCCCccccCccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCcccCCCCC
Q 011182 381 IKSAPHDLGKVHKRKKTQHEERGIMTSRKSKQRGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 455 (491)
Q Consensus 381 ~~s~~~~~~k~~k~~k~~~~~~~~~~~~~~~srgg~~~~~~~~~~~~~~~~~~~~~p~tp~~~~~~~~~~~~g~~ 455 (491)
+.+....+.++.++....++..+...|.+..+ |...++.+.++.+.++.||..| ||+|+.. +|.+.+|.+
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~---f~~~~l~~~l~~~l~~~g~~~p-t~iQ~~a-i~~i~~g~d 95 (434)
T 2db3_A 26 FSSGIASGIHFSKYNNIPVKVTGSDVPQPIQH---FTSADLRDIIIDNVNKSGYKIP-TPIQKCS-IPVISSGRD 95 (434)
T ss_dssp TSCCCCCCTTGGGGGGSCEEEESSSCCCCCCC---GGGSCCCHHHHHHHHHTTCCSC-CHHHHHH-HHHHHTTCC
T ss_pred hhcCcccccChhhhcCceeEecCCCCCCCcCC---hhhcCCCHHHHHHHHHcCCCCC-CHHHHHH-HHHHhcCCC
Confidence 43455667888888888888888887777666 7777777888888899999999 9999999 999988865
No 34
>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=75.43 E-value=3.4 Score=34.70 Aligned_cols=31 Identities=35% Similarity=0.659 Sum_probs=21.6
Q ss_pred ccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCc
Q 011182 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNI 293 (491)
Q Consensus 251 ~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~ 293 (491)
.|..|+..++. ...+.|-.|.+..|+.|..+
T Consensus 56 ~C~~C~~~~~~------------~~ll~Cd~C~~~yH~~Cl~p 86 (111)
T 2ysm_A 56 VCQNCKQSGED------------SKMLVCDTCDKGYHTFCLQP 86 (111)
T ss_dssp CCTTTCCCSCC------------TTEEECSSSCCEEEGGGSSS
T ss_pred cccccCccCCC------------CCeeECCCCCcHHhHHhcCC
Confidence 57777776542 23578888888889887654
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=54.13 E-value=11 Score=31.40 Aligned_cols=15 Identities=27% Similarity=0.545 Sum_probs=7.6
Q ss_pred ccccccCCCCccccc
Q 011182 277 VQCYICRCFGHLCCV 291 (491)
Q Consensus 277 ~~C~~Cg~~GHl~c~ 291 (491)
+.|..|.+..|+.|.
T Consensus 23 l~C~~C~~~~H~~Cl 37 (111)
T 2ysm_A 23 FFCTTCGQHYHGMCL 37 (111)
T ss_dssp EECSSSCCEECTTTT
T ss_pred eECCCCCCCcChHHh
Confidence 445555555555543
No 36
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=52.62 E-value=4.2 Score=25.94 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=13.8
Q ss_pred CcccccCCCCCcCCCCCCC
Q 011182 249 AQVCLKCGDSGHDMFSCRN 267 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~ 267 (491)
...|..|...||...+|+.
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 3578888888888888864
No 37
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Probab=45.74 E-value=1.9 Score=38.43 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=41.0
Q ss_pred hcchhhhHHHhhhhhhhhhhccc--------cccccccccchhhhh-----hhcccccccc----cccchhHHHHHHhhC
Q 011182 106 KSSDKKRIRVRKKKKKEADKIEI--------EDQSVIVRKEEQKVE-----TADNGDEGVT----TVEISDNIVLRKLLR 168 (491)
Q Consensus 106 k~~~~~~~r~K~~~k~~~~~~~~--------e~~~v~~~~~ee~~E-----~~~~A~e~v~----~~~~~~n~~~r~~lr 168 (491)
.|..|+.||||+|.|.++....+ .++.+......+..+ .+..|.+.|. .++..++.+.+.+|+
T Consensus 36 eTg~kI~IrGkGS~kd~~~e~~~~g~~~~~~~~epLHV~Isa~~~~~~~~~~l~~A~~~I~~lL~p~~e~~de~K~~QL~ 115 (140)
T 2bl5_A 36 ETGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLM 115 (140)
T ss_dssp HHSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEEEEECSCCHHHHHHHHHHHHHHHHHSSCCSSSSSHHHHHHHT
T ss_pred HHCCeEEEecCCCcccccccccccCCCCccccCCCcEEEEEecCchhhHHHHHHHHHHHHHHHCCCCCcchhHHHHHHHH
Confidence 37889999999998876543221 334444333333332 6667766555 334556777777777
Q ss_pred CCCCC
Q 011182 169 GPRYF 173 (491)
Q Consensus 169 ~~Ryf 173 (491)
..-..
T Consensus 116 eLA~l 120 (140)
T 2bl5_A 116 ELAIL 120 (140)
T ss_dssp GGGSS
T ss_pred HHHHh
Confidence 75444
No 38
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}
Probab=45.33 E-value=8.8 Score=28.91 Aligned_cols=46 Identities=26% Similarity=0.597 Sum_probs=26.8
Q ss_pred CcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCcC--CCCCCCcccccCCCC
Q 011182 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQL 309 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~Cg~~ 309 (491)
...|..|+..|. .+.|-.|....|+.|..+. ......+.|..|...
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 456777776432 2456667677787775542 223345677766544
No 39
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19
Probab=41.68 E-value=8 Score=36.03 Aligned_cols=59 Identities=17% Similarity=0.063 Sum_probs=40.4
Q ss_pred ccccCCCccccCccccc--cccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCcccCCCCC
Q 011182 392 HKRKKTQHEERGIMTSR--KSKQRGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 455 (491)
Q Consensus 392 ~k~~k~~~~~~~~~~~~--~~~srgg~~~~~~~~~~~~~~~~~~~~~p~tp~~~~~~~~~~~~g~~ 455 (491)
.++++......+...|. ... .|..-.+.+.+..+.+..||..| ||.|... ++.+..|.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~---~f~~l~l~~~l~~~l~~~g~~~~-~~~Q~~~-i~~i~~~~~ 62 (253)
T 1wrb_A 2 DKYDSIPVSVTGPDYSATNVIE---NFDELKLDPTIRNNILLASYQRP-TPIQKNA-IPAILEHRD 62 (253)
T ss_dssp -CCCCCCCCEECCSSSCCSCCC---SSGGGSCCCSTTTTTTTTTCCSC-CHHHHHH-HHHHHTTCC
T ss_pred cchhhCceeeeCCCCCCCCccC---CHhhCCCCHHHHHHHHHCCCCCC-CHHHHHH-HHHHhCCCC
Confidence 35555555555555443 222 36666667788888899999999 9999888 777776644
No 40
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=39.41 E-value=11 Score=31.89 Aligned_cols=18 Identities=33% Similarity=0.678 Sum_probs=11.8
Q ss_pred cccccCCCCC---cCCCCCCC
Q 011182 250 QVCLKCGDSG---HDMFSCRN 267 (491)
Q Consensus 250 ~~C~~Cg~~G---H~~~dCp~ 267 (491)
..|-.||-.| |..+-||.
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~ 92 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPM 92 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTT
T ss_pred ccCCCCCCcCCcccceecCCC
Confidence 5666676666 66666764
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=37.60 E-value=43 Score=24.98 Aligned_cols=44 Identities=32% Similarity=0.680 Sum_probs=24.3
Q ss_pred CcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCcC--CCCCCCcccccCC
Q 011182 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCG 307 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~Cg 307 (491)
...|..|+..|. .+.|-.|....|+.|..+. ......+.|..|.
T Consensus 9 ~~~C~vC~~~g~---------------ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~ 54 (61)
T 1mm2_A 9 MEFCRVCKDGGE---------------LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCT 54 (61)
T ss_dssp CSSCTTTCCCSS---------------CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTT
T ss_pred CCcCCCCCCCCC---------------EEEcCCCCHHHcccccCCCcCcCCCCccCChhhc
Confidence 456777776442 2455666666777765432 2223456666664
No 42
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=36.60 E-value=25 Score=25.75 Aligned_cols=44 Identities=30% Similarity=0.631 Sum_probs=24.9
Q ss_pred CCcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCcC--CCCCCCcccccC
Q 011182 248 NAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRC 306 (491)
Q Consensus 248 ~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~C 306 (491)
....|..|+..|. .+.|-.|....|+.|..+. ......+.|..|
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 3566777776542 2556667777777765432 222234556555
No 43
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}
Probab=33.44 E-value=26 Score=25.98 Aligned_cols=43 Identities=30% Similarity=0.636 Sum_probs=23.9
Q ss_pred CcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCcC--CCCCCCcccccC
Q 011182 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRC 306 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~C 306 (491)
...|..|+..|. .+.|-.|....|+.|..+. ......+.|..|
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 2556667777787765532 122234555554
No 44
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=32.65 E-value=14 Score=31.22 Aligned_cols=38 Identities=34% Similarity=0.751 Sum_probs=20.4
Q ss_pred cccccccccC--------ccccc------ccccccCCCCcceeecCC---CCcccCC
Q 011182 181 QTCYNCGEEG--------HMAVN------CRSAVKRKKPCFVCGSLE---HGVRQCS 220 (491)
Q Consensus 181 ~~C~~CG~~G--------H~a~~------Cp~~~~~~~~C~~CG~~G---H~a~~Cp 220 (491)
..|..|..-| |..++ ||.. +..+|-.||..| |..+-||
T Consensus 37 ~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPvL--R~Y~CpiCGATGd~AHT~kYCP 91 (106)
T 3alr_A 37 KFCSFCKHNGETEAVYTSHYLKNRDGDVMCPYL--RQYKCPLCGATGAKAHTKRFCP 91 (106)
T ss_dssp -CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTTG--GGCCCTTTCCCGGGCCCGGGCT
T ss_pred CEeECCCCCCcccCccccceeECCCCCCcCCCc--ccccCCCCCCcCCcccceecCC
Confidence 4566666444 66665 6654 345555565554 4444454
No 45
>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=30.36 E-value=42 Score=27.31 Aligned_cols=30 Identities=23% Similarity=0.474 Sum_probs=15.3
Q ss_pred ccccccCCCCcccccCcC--CCCCCCcccccC
Q 011182 277 VQCYICRCFGHLCCVNIS--DAVPGEVSCFRC 306 (491)
Q Consensus 277 ~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~C 306 (491)
+.|-.|....|+.|..++ ......+.|..|
T Consensus 32 l~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C 63 (92)
T 2e6r_A 32 LFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKC 63 (92)
T ss_dssp EECTTTCCEECSSSSSSCCSSCCSSCCCCHHH
T ss_pred EEcCCCCchhccccCCCCcccCCCCCcCCccC
Confidence 556666666677665432 122234555555
No 46
>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=27.82 E-value=98 Score=22.95 Aligned_cols=49 Identities=20% Similarity=0.413 Sum_probs=29.6
Q ss_pred cccccccccCCCCcccccCcCCCCCCCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccCCC
Q 011182 274 LKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNCGA 343 (491)
Q Consensus 274 ~~~~~C~~Cg~~GHl~c~~~~~~~~~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~Cg~ 343 (491)
.....|..|+..|.| +.|-.|...=|+ .|-...-...+...-+|..|..
T Consensus 7 ~~~~~C~vC~~~g~l------------l~Cd~C~~~fH~---------~Cl~ppl~~~p~g~W~C~~C~~ 55 (61)
T 1mm2_A 7 HHMEFCRVCKDGGEL------------LCCDTCPSSYHI---------HCLNPPLPEIPNGEWLCPRCTC 55 (61)
T ss_dssp SSCSSCTTTCCCSSC------------BCCSSSCCCBCS---------SSSSSCCSSCCSSCCCCTTTTT
T ss_pred CCCCcCCCCCCCCCE------------EEcCCCCHHHcc---------cccCCCcCcCCCCccCChhhcC
Confidence 345679999987776 566667766565 5544322222234557777753
No 47
>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}
Probab=27.34 E-value=44 Score=25.57 Aligned_cols=45 Identities=22% Similarity=0.462 Sum_probs=29.1
Q ss_pred CcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccCcC--CCCCCCcccccCCC
Q 011182 249 AQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCGQ 308 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~Cg~ 308 (491)
...|..|+..| ..+.|-.|....|+.|-.+. ......+.|..|..
T Consensus 12 ~~~C~vC~~~~---------------~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~ 58 (66)
T 2lri_C 12 GARCGVCGDGT---------------DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSG 58 (66)
T ss_dssp TCCCTTTSCCT---------------TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTT
T ss_pred CCCcCCCCCCC---------------eEEECCCCCCceecccCCCccCcCCCCCEECccccC
Confidence 45688887543 13678888888898876543 23334677777753
No 48
>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=26.60 E-value=19 Score=25.45 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=13.5
Q ss_pred CcccccCCCCCcCCCCCCC
Q 011182 249 AQVCLKCGDSGHDMFSCRN 267 (491)
Q Consensus 249 ~~~C~~Cg~~GH~~~dCp~ 267 (491)
...|..|...||...+|+.
T Consensus 20 RpYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCND 38 (42)
T ss_dssp -CEETTTTEESSCGGGCCT
T ss_pred CcccccccccCcccccCCc
Confidence 5677777777777777754
No 49
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=26.48 E-value=1e+02 Score=25.10 Aligned_cols=59 Identities=31% Similarity=0.517 Sum_probs=0.0
Q ss_pred CCCCCCCCccCCCCcCCcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCccccc--CcCCCCCCCcccccC
Q 011182 233 HRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCV--NISDAVPGEVSCFRC 306 (491)
Q Consensus 233 H~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~--~~~~~~~~~~~C~~C 306 (491)
|...+=-............|..|+..|.+ +.|-.|-...|+.|. .........+.|..|
T Consensus 9 ~~~~~~~~~~~~~d~n~~~C~vC~~~g~L---------------L~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C 69 (88)
T 1fp0_A 9 HHGSDIIDEFGTLDDSATICRVCQKPGDL---------------VMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69 (88)
T ss_dssp CSSSCCCCCCCSSSSSSSCCSSSCSSSCC---------------EECTTSSCEECTTSSSTTCCCCCSSSCCCCSC
T ss_pred cccccccccccccCCCCCcCcCcCCCCCE---------------EECCCCCCceecccCCCCCCCCcCCCcCCccc
No 50
>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A
Probab=26.16 E-value=39 Score=25.60 Aligned_cols=46 Identities=28% Similarity=0.625 Sum_probs=0.0
Q ss_pred CcCCcccccCCCCCcCCCCCCCCCCCCccccccccccCCCCcccccC--cCCCCCCCcccccC
Q 011182 246 FQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVN--ISDAVPGEVSCFRC 306 (491)
Q Consensus 246 ~~~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~Cg~~GHl~c~~--~~~~~~~~~~C~~C 306 (491)
......|..|+..|.+ +.|-.|....|+.|.. ........+.|..|
T Consensus 5 ~~~~~~C~vC~~~g~l---------------l~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C 52 (66)
T 1xwh_A 5 QKNEDECAVCRDGGEL---------------ICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52 (66)
T ss_dssp CSCCCSBSSSSCCSSC---------------EECSSCCCEECTTTSSSCCSSCCSSCCCCHHH
T ss_pred CCCCCCCccCCCCCCE---------------EEcCCCChhhcccccCCCcCcCCCCCeECccc
No 51
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}
Probab=24.37 E-value=41 Score=24.84 Aligned_cols=47 Identities=28% Similarity=0.593 Sum_probs=27.3
Q ss_pred cccccccccCCCCcccccCcCCCCCCCcccccCCCCCCCCcccccccccccccCCCCCCCCCCCcccC
Q 011182 274 LKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLHWNSCMQACARSRGETVEASPSSCYNC 341 (491)
Q Consensus 274 ~~~~~C~~Cg~~GHl~c~~~~~~~~~~~~C~~Cg~~GH~~~~~~~~~~~C~~~~~~~~~~~~~~Cy~C 341 (491)
..+..|..|+..|.| +.|-.|...=|+ .|-.+.-...+...-+|..|
T Consensus 3 ~~~~~C~vC~~~g~l------------l~Cd~C~~~fH~---------~Cl~ppl~~~p~g~W~C~~C 49 (60)
T 2puy_A 3 IHEDFCSVCRKSGQL------------LMCDTCSRVYHL---------DCLDPPLKTIPKGMWICPRC 49 (60)
T ss_dssp CCCSSCTTTCCCSSC------------EECSSSSCEECG---------GGSSSCCSSCCCSCCCCHHH
T ss_pred CCCCCCcCCCCCCcE------------EEcCCCCcCEEC---------CcCCCCcCCCCCCceEChhc
Confidence 345679999988766 566677765565 56543222222334456665
No 52
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=24.32 E-value=52 Score=23.27 Aligned_cols=32 Identities=28% Similarity=0.555 Sum_probs=19.1
Q ss_pred cccccccCCCCcccccCcC--CCCCCCcccccCC
Q 011182 276 EVQCYICRCFGHLCCVNIS--DAVPGEVSCFRCG 307 (491)
Q Consensus 276 ~~~C~~Cg~~GHl~c~~~~--~~~~~~~~C~~Cg 307 (491)
.+.|-.|....|+.|..+. ......+.|..|.
T Consensus 15 ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~ 48 (51)
T 1f62_A 15 LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48 (51)
T ss_dssp CEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTS
T ss_pred EEECCCCChhhCcccCCCCcCCCCCCcEECcCcc
Confidence 3667777777788775432 2222456666664
No 53
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A
Probab=24.10 E-value=2.8e+02 Score=22.80 Aligned_cols=12 Identities=33% Similarity=0.758 Sum_probs=5.8
Q ss_pred ccccccccCCCC
Q 011182 223 QDCFICKKGGHR 234 (491)
Q Consensus 223 ~~C~~Cg~~GH~ 234 (491)
..|..|+...|.
T Consensus 27 l~C~~C~~~~H~ 38 (112)
T 3v43_A 27 ISCADCGNSGHP 38 (112)
T ss_dssp EECTTTCCEECH
T ss_pred eEhhhcCCCCCC
Confidence 345555555554
No 54
>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=23.65 E-value=1.2e+02 Score=22.90 Aligned_cols=21 Identities=33% Similarity=0.689 Sum_probs=11.1
Q ss_pred CCCCCCCCCccCCCCcCCcccccCCCCC
Q 011182 232 GHRAKDCPDKHKSGFQNAQVCLKCGDSG 259 (491)
Q Consensus 232 GH~a~~Cp~~~~~~~~~~~~C~~Cg~~G 259 (491)
-|....||.. .+.|..|+...
T Consensus 34 ~H~~~~C~~r-------~v~C~~C~~~~ 54 (76)
T 2yuc_A 34 AHLQHDCPKR-------RLKCEFCGCDF 54 (76)
T ss_dssp TTTTTSCTTS-------CCCCSSSCCCC
T ss_pred hhCHhhCCCc-------ceECCCCCCcc
Confidence 4555566653 24555555543
Done!