Query 026649
Match_columns 235
No_of_seqs 267 out of 1763
Neff 6.9
Searched_HMMs 29240
Date Mon Mar 25 18:43:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026649.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/026649hhsearch_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 4.2E-28 1.4E-32 190.0 9.6 77 70-154 5-85 (124)
2 2lli_A Protein AIR2; RNA surve 99.9 3.8E-26 1.3E-30 178.9 11.2 79 11-90 3-85 (124)
3 3nyb_B Protein AIR2; polya RNA 99.7 1.7E-17 5.9E-22 120.9 3.1 61 133-227 5-67 (83)
4 2li8_A Protein LIN-28 homolog 99.6 2.9E-15 9.9E-20 106.9 4.8 63 142-226 2-66 (74)
5 3nyb_B Protein AIR2; polya RNA 99.5 1.3E-15 4.4E-20 111.0 2.9 60 95-154 5-67 (83)
6 2a51_A Nucleocapsid protein; s 99.4 2.4E-13 8.4E-18 85.1 3.7 38 187-224 1-39 (39)
7 2li8_A Protein LIN-28 homolog 99.3 6.4E-13 2.2E-17 94.7 4.2 60 78-153 2-66 (74)
8 2bl6_A Nucleocapsid protein P1 99.3 6.1E-13 2.1E-17 82.3 3.1 37 187-224 1-37 (37)
9 2ec7_A GAG polyprotein (PR55GA 99.3 1.3E-12 4.4E-17 85.9 4.4 43 185-227 5-48 (49)
10 2ihx_A Nucleocapsid (NC) prote 99.3 1.1E-12 3.8E-17 90.0 3.4 43 185-227 3-51 (61)
11 1a1t_A Nucleocapsid protein; s 99.3 1.3E-12 4.3E-17 87.8 2.9 43 185-227 11-54 (55)
12 2cqf_A RNA-binding protein LIN 99.3 3.8E-12 1.3E-16 87.9 4.7 42 185-226 6-49 (63)
13 1cl4_A Protein (GAG polyprotei 99.3 1.8E-12 6.2E-17 88.6 2.6 41 187-227 2-51 (60)
14 1a1t_A Nucleocapsid protein; s 99.2 6.2E-12 2.1E-16 84.4 3.4 49 1-49 1-51 (55)
15 2bl6_A Nucleocapsid protein P1 99.2 1E-11 3.5E-16 76.8 3.1 36 116-151 2-37 (37)
16 2a51_A Nucleocapsid protein; s 99.1 2.7E-11 9.1E-16 75.7 4.0 36 116-151 2-39 (39)
17 2ec7_A GAG polyprotein (PR55GA 99.0 1.4E-10 4.7E-15 76.1 4.1 40 10-49 4-45 (49)
18 2ihx_A Nucleocapsid (NC) prote 99.0 1.1E-10 3.6E-15 80.1 3.5 47 96-154 5-51 (61)
19 2cqf_A RNA-binding protein LIN 99.0 7.3E-10 2.5E-14 76.4 5.7 40 10-49 5-47 (63)
20 1cl4_A Protein (GAG polyprotei 99.0 3.5E-10 1.2E-14 77.1 3.8 49 97-154 3-51 (60)
21 3ts2_A Protein LIN-28 homolog 98.9 6.5E-10 2.2E-14 89.2 3.1 43 186-228 97-141 (148)
22 3ts2_A Protein LIN-28 homolog 98.7 7.6E-09 2.6E-13 82.9 3.3 40 115-154 98-140 (148)
23 1dsq_A Nucleic acid binding pr 98.2 6.1E-07 2.1E-11 50.8 1.9 20 207-226 3-22 (26)
24 1a6b_B Momulv, zinc finger pro 98.1 1.2E-06 4.2E-11 54.6 3.0 25 206-230 10-34 (40)
25 1nc8_A Nucleocapsid protein; H 98.0 3E-06 1E-10 49.2 1.9 20 207-226 7-26 (29)
26 1dsq_A Nucleic acid binding pr 97.9 5E-06 1.7E-10 47.0 2.0 19 187-205 3-21 (26)
27 1u6p_A GAG polyprotein; MLV, A 97.8 1.1E-05 3.8E-10 53.9 2.5 19 186-204 23-41 (56)
28 1a6b_B Momulv, zinc finger pro 97.7 1.6E-05 5.4E-10 49.6 2.6 23 184-206 8-30 (40)
29 1nc8_A Nucleocapsid protein; H 97.7 1.1E-05 3.7E-10 46.7 1.6 22 10-31 4-25 (29)
30 1u6p_A GAG polyprotein; MLV, A 97.3 0.00013 4.5E-09 48.7 2.7 26 205-230 22-47 (56)
31 2ysa_A Retinoblastoma-binding 97.1 0.00011 3.7E-09 48.9 0.9 19 186-204 7-25 (55)
32 2ysa_A Retinoblastoma-binding 96.8 0.00049 1.7E-08 45.7 2.0 21 205-225 6-26 (55)
33 2yuc_A TNF receptor-associated 72.5 12 0.00042 24.9 6.4 40 187-227 17-71 (76)
34 2hqh_E Restin; beta/BETA struc 61.8 2.6 8.9E-05 23.2 0.8 18 207-224 4-21 (26)
35 2yuc_A TNF receptor-associated 55.3 28 0.00096 23.0 5.5 23 187-210 45-74 (76)
36 2pk2_A Cyclin-T1, protein TAT; 44.2 4.8 0.00016 35.8 0.0 7 145-151 268-274 (358)
37 3alr_A Nanos protein; zinc-fin 25.9 41 0.0014 24.7 2.4 15 117-131 74-91 (106)
38 2pzo_E CAP-Gly domain-containi 25.5 22 0.00076 21.7 0.8 17 187-203 21-37 (42)
No 1
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.95 E-value=4.2e-28 Score=190.02 Aligned_cols=77 Identities=27% Similarity=0.758 Sum_probs=66.7
Q ss_pred cccccCCCCCcCCccCCCCcccCCCCcccccCCCC-CCCCCCCCCcccccccccCccccCCCCCC---CCCCccccCCCC
Q 026649 70 GICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKP-GHIAADCTNDKACKNCRKTGHIARDCQNE---PVCNLCNIAGHV 145 (235)
Q Consensus 70 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~C~~Cg~~-GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~~---~~C~~C~~~GH~ 145 (235)
..||+|++.||++++||+. .||+|++. ||++++||+.+.||+|+++||++++||+. +.||+|+++||+
T Consensus 5 ~~C~~C~~~GH~~~~Cp~~--------~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~ 76 (124)
T 2lli_A 5 PKCNNCSQRGHLKKDCPHI--------ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHS 76 (124)
T ss_dssp SCCSSCSSSSCCTTTTTSC--------CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCC
T ss_pred CcccCCCCCCcCcccCcCC--------cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCcccCccCCCCCcCCcc
Confidence 5699999999999999863 69999998 99999999878899999999999999874 689999999999
Q ss_pred CCCCCCCCC
Q 026649 146 ARQCPKGDS 154 (235)
Q Consensus 146 ~~~Cp~~~~ 154 (235)
+++||+.+.
T Consensus 77 ~~~Cp~~~~ 85 (124)
T 2lli_A 77 KERCPSIWR 85 (124)
T ss_dssp TTTCCCSTT
T ss_pred hhhCCCccc
Confidence 999998653
No 2
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=99.93 E-value=3.8e-26 Score=178.86 Aligned_cols=79 Identities=30% Similarity=0.844 Sum_probs=68.7
Q ss_pred CCccccccCCCCccCCCCCCCcccCCCCCC-CCCCccccccccCCCCCCCCCCCCCCCCc---cccccCCCCCcCCccCC
Q 026649 11 QGNLCNNCKRPGHFARECPNVAVCNNCGLP-GHIASECTTQARCWNCREPGHMASNCHNE---GICHSCGKTGHRARDCS 86 (235)
Q Consensus 11 ~~~~C~~C~~~GH~~~~Cp~~~~C~~Cg~~-GH~~~~C~~~~~C~~Cg~~GH~~~~Cp~~---~~C~~Cg~~GH~~~~Cp 86 (235)
+++.||+|+++||++++||.. +|++|+++ ||++++||+...|++|+++||++++||+. ..|++|++.||++++||
T Consensus 3 ~~~~C~~C~~~GH~~~~Cp~~-~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~Cp 81 (124)
T 2lli_A 3 AAPKCNNCSQRGHLKKDCPHI-ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERCP 81 (124)
T ss_dssp CSSCCSSCSSSSCCTTTTTSC-CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTCC
T ss_pred CCCcccCCCCCCcCcccCcCC-cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCcccCccCCCCCcCCcchhhCC
Confidence 467899999999999999986 89999998 99999999878899999999999999875 56888888888888888
Q ss_pred CCcc
Q 026649 87 THVQ 90 (235)
Q Consensus 87 ~~~~ 90 (235)
+.|.
T Consensus 82 ~~~~ 85 (124)
T 2lli_A 82 SIWR 85 (124)
T ss_dssp CSTT
T ss_pred Cccc
Confidence 8764
No 3
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.67 E-value=1.7e-17 Score=120.92 Aligned_cols=61 Identities=30% Similarity=0.585 Sum_probs=34.9
Q ss_pred CCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCccccccCCCCccCCCCCCC--Cccee
Q 026649 133 EPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVGP--LIICR 210 (235)
Q Consensus 133 ~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~C~~C~~~gH~~rdC~~~--~~~C~ 210 (235)
.+.||+|++.||++++||+. ..||+|++++|++++|+.+ .+.||
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~----------------------------------~rcY~c~~~gh~~~~c~~p~~~~~CY 50 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSI----------------------------------WRAYILVDDNEKAKPKVLPFHTIYCY 50 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGG----------------------------------TCCCCBC-------------CCCBCS
T ss_pred cCCCCCCCCCCCccccCCCc----------------------------------ccccccccCCcccccccCCCCCCeec
Confidence 35677777777777777753 2477777777777777543 57888
Q ss_pred cCCCCCcCCCCCCCCCC
Q 026649 211 NCGGRGHMAYECPSGRI 227 (235)
Q Consensus 211 ~Cg~~GH~~~~Cp~~~~ 227 (235)
|||+.|||++|||+.+.
T Consensus 51 nCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 51 NCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp SSSCBSSCGGGCSSCCS
T ss_pred ccCCCCcCcccCCcccc
Confidence 88888888888887663
No 4
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.55 E-value=2.9e-15 Score=106.88 Aligned_cols=63 Identities=21% Similarity=0.389 Sum_probs=40.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCccccccCCCCccCCCCCC--CCcceecCCCCCcCC
Q 026649 142 AGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVG--PLIICRNCGGRGHMA 219 (235)
Q Consensus 142 ~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~C~~C~~~gH~~rdC~~--~~~~C~~Cg~~GH~~ 219 (235)
+|||++||+++....... .....+.||+|+++||+++|||+ ..+.||+|++.||++
T Consensus 2 ~gh~~rdc~~~~~~~~~~----------------------~~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~a 59 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQK----------------------RRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMV 59 (74)
T ss_dssp ----------CCCCCCCS----------------------CCSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCG
T ss_pred CccccCcCCCCCcCcccc----------------------ccCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCcc
Confidence 689999998875321000 01245789999999999999997 368999999999999
Q ss_pred CCCCCCC
Q 026649 220 YECPSGR 226 (235)
Q Consensus 220 ~~Cp~~~ 226 (235)
+|||+..
T Consensus 60 r~Cp~~~ 66 (74)
T 2li8_A 60 ASCPLKA 66 (74)
T ss_dssp GGCTTGG
T ss_pred CcCcCCc
Confidence 9999854
No 5
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=99.55 E-value=1.3e-15 Score=111.00 Aligned_cols=60 Identities=18% Similarity=0.250 Sum_probs=38.4
Q ss_pred CcccccCCCCCCCCCCCCCcccccccccCccccCCCCC---CCCCCccccCCCCCCCCCCCCC
Q 026649 95 LRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQN---EPVCNLCNIAGHVARQCPKGDS 154 (235)
Q Consensus 95 ~~~C~~Cg~~GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~---~~~C~~C~~~GH~~~~Cp~~~~ 154 (235)
.+.||+|++.||++++||+...||+|+..+|++++|+. .+.||+|++.|||++|||+...
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGTCCCCBC-------------CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred cCCCCCCCCCCCccccCCCcccccccccCCcccccccCCCCCCeecccCCCCcCcccCCcccc
Confidence 46677888888888888776678888888888888764 3789999999999999998763
No 6
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.38 E-value=2.4e-13 Score=85.12 Aligned_cols=38 Identities=37% Similarity=0.862 Sum_probs=35.3
Q ss_pred ccccccCCCCccCCCCCCC-CcceecCCCCCcCCCCCCC
Q 026649 187 VICRSCNQMGHMSRDCVGP-LIICRNCGGRGHMAYECPS 224 (235)
Q Consensus 187 ~~C~~C~~~gH~~rdC~~~-~~~C~~Cg~~GH~~~~Cp~ 224 (235)
++||+|+++||+++|||++ .+.||+|++.||++++||+
T Consensus 1 i~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 1 LTCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CBCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCTTTSCC
T ss_pred CeeeccCCCCcccccCCCCCCCccccCCCCCCccCcCcC
Confidence 4799999999999999975 6899999999999999995
No 7
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.34 E-value=6.4e-13 Score=94.68 Aligned_cols=60 Identities=22% Similarity=0.438 Sum_probs=29.0
Q ss_pred CCcCCccCCCCcccC-----CCCcccccCCCCCCCCCCCCCcccccccccCccccCCCCCCCCCCccccCCCCCCCCCCC
Q 026649 78 TGHRARDCSTHVQSG-----GDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKG 152 (235)
Q Consensus 78 ~GH~~~~Cp~~~~~~-----~~~~~C~~Cg~~GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~~ 152 (235)
.||+++||+++.... .....||+|++.||++++|+... ....||+|+++||++++||+.
T Consensus 2 ~gh~~rdc~~~~~~~~~~~~~r~~~C~~Cg~~GH~a~~C~~~~----------------~~~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQKRRSKGDRCYNCGGLDHHAKECKLPP----------------QPKKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp ----------CCCCCCCSCCSTTSCCTTTCCSSSCTTTCSSCC----------------CCCCCTTTCCTTSCGGGCTTG
T ss_pred CccccCcCCCCCcCccccccCCCCcccccCCcCcCcccCCCCC----------------CCCccCCcCCcCCccCcCcCC
Confidence 467777777664321 12344555555555555554310 246788888888888888876
Q ss_pred C
Q 026649 153 D 153 (235)
Q Consensus 153 ~ 153 (235)
.
T Consensus 66 ~ 66 (74)
T 2li8_A 66 A 66 (74)
T ss_dssp G
T ss_pred c
Confidence 4
No 8
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.33 E-value=6.1e-13 Score=82.35 Aligned_cols=37 Identities=35% Similarity=0.916 Sum_probs=34.3
Q ss_pred ccccccCCCCccCCCCCCCCcceecCCCCCcCCCCCCC
Q 026649 187 VICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPS 224 (235)
Q Consensus 187 ~~C~~C~~~gH~~rdC~~~~~~C~~Cg~~GH~~~~Cp~ 224 (235)
++||+|+++||+++|||++ +.||+|++.||++++||+
T Consensus 1 ~~C~~Cg~~GH~~~~C~~~-~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 1 QTCYNCGKPGHLSSQCRAP-KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CCBSSSCCSSCCTTTSSCB-TTCSSCCCTTGGGGTTCC
T ss_pred CcccccCCCCcchhhCcCc-CeEccCCCcCCccCcCcC
Confidence 3699999999999999965 799999999999999995
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=99.31 E-value=1.3e-12 Score=85.86 Aligned_cols=43 Identities=33% Similarity=0.825 Sum_probs=38.3
Q ss_pred cCccccccCCCCccCCCCCCC-CcceecCCCCCcCCCCCCCCCC
Q 026649 185 HDVICRSCNQMGHMSRDCVGP-LIICRNCGGRGHMAYECPSGRI 227 (235)
Q Consensus 185 ~~~~C~~C~~~gH~~rdC~~~-~~~C~~Cg~~GH~~~~Cp~~~~ 227 (235)
+.++||+|+++||+++|||++ .+.||+|++.||++++||+...
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 48 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPERQA 48 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCSSCC
T ss_pred CcCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcCCCC
Confidence 357899999999999999985 4789999999999999998643
No 10
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.29 E-value=1.1e-12 Score=90.04 Aligned_cols=43 Identities=28% Similarity=0.597 Sum_probs=37.8
Q ss_pred cCccccccCCCCccCCCCCCC------CcceecCCCCCcCCCCCCCCCC
Q 026649 185 HDVICRSCNQMGHMSRDCVGP------LIICRNCGGRGHMAYECPSGRI 227 (235)
Q Consensus 185 ~~~~C~~C~~~gH~~rdC~~~------~~~C~~Cg~~GH~~~~Cp~~~~ 227 (235)
..++||+|+++||+++|||.. .+.||+|++.||+++|||+.+.
T Consensus 3 ~~~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 3 ARGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp CTTBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCCCC-
T ss_pred CCCcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcCCCc
Confidence 347899999999999999985 3789999999999999998765
No 11
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=99.28 E-value=1.3e-12 Score=87.83 Aligned_cols=43 Identities=30% Similarity=0.803 Sum_probs=38.8
Q ss_pred cCccccccCCCCccCCCCCCC-CcceecCCCCCcCCCCCCCCCC
Q 026649 185 HDVICRSCNQMGHMSRDCVGP-LIICRNCGGRGHMAYECPSGRI 227 (235)
Q Consensus 185 ~~~~C~~C~~~gH~~rdC~~~-~~~C~~Cg~~GH~~~~Cp~~~~ 227 (235)
..++||+|+++||+++|||++ ...||+|++.||+++|||+.+.
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 54 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQA 54 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSSSCC
T ss_pred CCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcCcCC
Confidence 458899999999999999975 5799999999999999998654
No 12
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.26 E-value=3.8e-12 Score=87.90 Aligned_cols=42 Identities=26% Similarity=0.622 Sum_probs=38.0
Q ss_pred cCccccccCCCCccCCCCCCC--CcceecCCCCCcCCCCCCCCC
Q 026649 185 HDVICRSCNQMGHMSRDCVGP--LIICRNCGGRGHMAYECPSGR 226 (235)
Q Consensus 185 ~~~~C~~C~~~gH~~rdC~~~--~~~C~~Cg~~GH~~~~Cp~~~ 226 (235)
....||+|+++||+++|||++ .+.||+|++.||+++|||+..
T Consensus 6 r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 6 SGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp SCCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTGGG
T ss_pred CCCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCCcc
Confidence 457899999999999999973 789999999999999999853
No 13
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=99.25 E-value=1.8e-12 Score=88.57 Aligned_cols=41 Identities=29% Similarity=0.609 Sum_probs=19.9
Q ss_pred ccccccCCCCccCCCCCCC---------CcceecCCCCCcCCCCCCCCCC
Q 026649 187 VICRSCNQMGHMSRDCVGP---------LIICRNCGGRGHMAYECPSGRI 227 (235)
Q Consensus 187 ~~C~~C~~~gH~~rdC~~~---------~~~C~~Cg~~GH~~~~Cp~~~~ 227 (235)
..||+|+++||+++|||+. .+.||+|++.|||++|||+...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp ---------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred CccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccc
Confidence 3699999999999999984 5889999999999999998764
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=99.21 E-value=6.2e-12 Score=84.40 Aligned_cols=49 Identities=33% Similarity=0.666 Sum_probs=37.6
Q ss_pred CCccccccCcCCccccccCCCCccCCCCCCC--cccCCCCCCCCCCccccc
Q 026649 1 MLKNVLSFMSQGNLCNNCKRPGHFARECPNV--AVCNNCGLPGHIASECTT 49 (235)
Q Consensus 1 ~~~~~~~~~~~~~~C~~C~~~GH~~~~Cp~~--~~C~~Cg~~GH~~~~C~~ 49 (235)
||+..|.-+..++.||+|+++||++++||.+ ..|++|+++||++++||.
T Consensus 1 ~q~~~f~g~~~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 1 MQKGNFRNQRKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp CCCGGGGGGGGTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSS
T ss_pred CCccccCCCCCCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcC
Confidence 7887877788889999999999999999875 456666666666555554
No 15
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=99.18 E-value=1e-11 Score=76.79 Aligned_cols=36 Identities=39% Similarity=0.987 Sum_probs=21.3
Q ss_pred cccccccCccccCCCCCCCCCCccccCCCCCCCCCC
Q 026649 116 ACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPK 151 (235)
Q Consensus 116 ~C~~Cg~~GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~ 151 (235)
.||+|+++||++++||....||+|+++||++++||+
T Consensus 2 ~C~~Cg~~GH~~~~C~~~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSCBTTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcCcCeEccCCCcCCccCcCcC
Confidence 355555555555555555566666666666666653
No 16
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=99.15 E-value=2.7e-11 Score=75.72 Aligned_cols=36 Identities=44% Similarity=0.870 Sum_probs=22.5
Q ss_pred cccccccCccccCCCCC--CCCCCccccCCCCCCCCCC
Q 026649 116 ACKNCRKTGHIARDCQN--EPVCNLCNIAGHVARQCPK 151 (235)
Q Consensus 116 ~C~~Cg~~GH~~~~Cp~--~~~C~~C~~~GH~~~~Cp~ 151 (235)
.||+|++.||++++||+ ...||+|+++||++++||+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCTTTSCC
T ss_pred eeeccCCCCcccccCCCCCCCccccCCCCCCccCcCcC
Confidence 35555555555555553 2567777777777777764
No 17
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=99.05 E-value=1.4e-10 Score=76.05 Aligned_cols=40 Identities=35% Similarity=0.787 Sum_probs=25.7
Q ss_pred cCCccccccCCCCccCCCCCCC--cccCCCCCCCCCCccccc
Q 026649 10 SQGNLCNNCKRPGHFARECPNV--AVCNNCGLPGHIASECTT 49 (235)
Q Consensus 10 ~~~~~C~~C~~~GH~~~~Cp~~--~~C~~Cg~~GH~~~~C~~ 49 (235)
.+++.||+|+++||++++||.+ ..|++|+++||++++||+
T Consensus 4 ~r~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 4 RKVIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCCCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCS
T ss_pred CCcCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcC
Confidence 4567888888888888888764 245555555555555543
No 18
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.04 E-value=1.1e-10 Score=80.07 Aligned_cols=47 Identities=43% Similarity=0.914 Sum_probs=30.3
Q ss_pred cccccCCCCCCCCCCCCCcccccccccCccccCCCCCCCCCCccccCCCCCCCCCCCCC
Q 026649 96 RLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDS 154 (235)
Q Consensus 96 ~~C~~Cg~~GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~~~~ 154 (235)
..||+|++.||++++||.... .+ ....+||+|+++||++++||+...
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~------~~------~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRK------SG------NSRERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTS------SS------CCCSBCTTTCCBSSCGGGCCCCC-
T ss_pred CcccccCCCCeehhhCcCCcC------CC------CCCCeeCCCCCCCCCcCCCcCCCc
Confidence 456666666666666655320 00 113679999999999999998753
No 19
>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=98.97 E-value=7.3e-10 Score=76.36 Aligned_cols=40 Identities=33% Similarity=0.706 Sum_probs=26.5
Q ss_pred cCCccccccCCCCccCCCCCCC---cccCCCCCCCCCCccccc
Q 026649 10 SQGNLCNNCKRPGHFARECPNV---AVCNNCGLPGHIASECTT 49 (235)
Q Consensus 10 ~~~~~C~~C~~~GH~~~~Cp~~---~~C~~Cg~~GH~~~~C~~ 49 (235)
+++..||+|+++||++++||.. ..|++|+++||++++||+
T Consensus 5 ~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~ 47 (63)
T 2cqf_A 5 SSGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPL 47 (63)
T ss_dssp CSCCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTG
T ss_pred CCCCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCC
Confidence 4567899999999999999853 345555555555555543
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=98.96 E-value=3.5e-10 Score=77.06 Aligned_cols=49 Identities=24% Similarity=0.557 Sum_probs=19.3
Q ss_pred ccccCCCCCCCCCCCCCcccccccccCccccCCCCCCCCCCccccCCCCCCCCCCCCC
Q 026649 97 LCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDS 154 (235)
Q Consensus 97 ~C~~Cg~~GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~~~~ 154 (235)
.||+|++.||++++||.... +- ..-....+||+|+++||++++||+...
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~~-------~~--~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHAH-------NN--AEPKVPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp -----------------------------------CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred ccccCCCCCcCHhhCcCCCC-------Cc--cccCCCcceeECCCCCCccCcCCCccc
Confidence 46666666666666665320 00 000124689999999999999998753
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=98.88 E-value=6.5e-10 Score=89.16 Aligned_cols=43 Identities=26% Similarity=0.593 Sum_probs=37.5
Q ss_pred CccccccCCCCccCCCCCCC--CcceecCCCCCcCCCCCCCCCCC
Q 026649 186 DVICRSCNQMGHMSRDCVGP--LIICRNCGGRGHMAYECPSGRIA 228 (235)
Q Consensus 186 ~~~C~~C~~~gH~~rdC~~~--~~~C~~Cg~~GH~~~~Cp~~~~~ 228 (235)
.+.||+|++.||++++||.+ .+.||+|++.||++++||+....
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTTC-
T ss_pred CCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCCCC
Confidence 47899999999999999973 48999999999999999986443
No 22
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=98.68 E-value=7.6e-09 Score=82.88 Aligned_cols=40 Identities=28% Similarity=0.733 Sum_probs=30.7
Q ss_pred ccccccccCccccCCCCC---CCCCCccccCCCCCCCCCCCCC
Q 026649 115 KACKNCRKTGHIARDCQN---EPVCNLCNIAGHVARQCPKGDS 154 (235)
Q Consensus 115 ~~C~~Cg~~GH~~~~Cp~---~~~C~~C~~~GH~~~~Cp~~~~ 154 (235)
..||+|++.||++++||. ...||+|++.||++++||+...
T Consensus 98 ~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~~ 140 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQ 140 (148)
T ss_dssp CCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTTC
T ss_pred CcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCCC
Confidence 356777777777777765 5689999999999999998754
No 23
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=98.18 E-value=6.1e-07 Score=50.85 Aligned_cols=20 Identities=30% Similarity=0.868 Sum_probs=12.9
Q ss_pred cceecCCCCCcCCCCCCCCC
Q 026649 207 IICRNCGGRGHMAYECPSGR 226 (235)
Q Consensus 207 ~~C~~Cg~~GH~~~~Cp~~~ 226 (235)
+.||+||+.|||++|||++.
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 46677777777777776654
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=98.15 E-value=1.2e-06 Score=54.65 Aligned_cols=25 Identities=32% Similarity=0.638 Sum_probs=13.5
Q ss_pred CcceecCCCCCcCCCCCCCCCCCCC
Q 026649 206 LIICRNCGGRGHMAYECPSGRIADR 230 (235)
Q Consensus 206 ~~~C~~Cg~~GH~~~~Cp~~~~~~~ 230 (235)
...||+|++.|||++|||+...-+|
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~~~r 34 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPRGPR 34 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCCCTT
T ss_pred CCeeeECCCCCcchhhCcCCcccCC
Confidence 3455555555555555555544443
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=97.95 E-value=3e-06 Score=49.17 Aligned_cols=20 Identities=50% Similarity=1.016 Sum_probs=10.4
Q ss_pred cceecCCCCCcCCCCCCCCC
Q 026649 207 IICRNCGGRGHMAYECPSGR 226 (235)
Q Consensus 207 ~~C~~Cg~~GH~~~~Cp~~~ 226 (235)
+.||||+++||++++||.++
T Consensus 7 ~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 7 IRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CBCTTTSCBSSCGGGCCSSS
T ss_pred CEEEECCccccCHhHCcccc
Confidence 44555555555555555443
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=97.88 E-value=5e-06 Score=46.97 Aligned_cols=19 Identities=42% Similarity=1.011 Sum_probs=17.6
Q ss_pred ccccccCCCCccCCCCCCC
Q 026649 187 VICRSCNQMGHMSRDCVGP 205 (235)
Q Consensus 187 ~~C~~C~~~gH~~rdC~~~ 205 (235)
.+||+|+++||+|+|||.+
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 6899999999999999975
No 27
>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=97.77 E-value=1.1e-05 Score=53.95 Aligned_cols=19 Identities=32% Similarity=0.793 Sum_probs=11.2
Q ss_pred CccccccCCCCccCCCCCC
Q 026649 186 DVICRSCNQMGHMSRDCVG 204 (235)
Q Consensus 186 ~~~C~~C~~~gH~~rdC~~ 204 (235)
..+||+|++.|||++|||.
T Consensus 23 ~~~C~~Cge~GH~ardCp~ 41 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPK 41 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTT
T ss_pred CCcceeCCCCCcccccCcC
Confidence 4556666666666666654
No 28
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=97.73 E-value=1.6e-05 Score=49.58 Aligned_cols=23 Identities=26% Similarity=0.619 Sum_probs=19.9
Q ss_pred ccCccccccCCCCccCCCCCCCC
Q 026649 184 YHDVICRSCNQMGHMSRDCVGPL 206 (235)
Q Consensus 184 ~~~~~C~~C~~~gH~~rdC~~~~ 206 (235)
....+||+|++.||||+|||...
T Consensus 8 ~~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 8 LDRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp CCSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCCeeeECCCCCcchhhCcCCc
Confidence 35689999999999999999743
No 29
>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=97.72 E-value=1.1e-05 Score=46.72 Aligned_cols=22 Identities=36% Similarity=0.673 Sum_probs=18.1
Q ss_pred cCCccccccCCCCccCCCCCCC
Q 026649 10 SQGNLCNNCKRPGHFARECPNV 31 (235)
Q Consensus 10 ~~~~~C~~C~~~GH~~~~Cp~~ 31 (235)
..++.||||+++||++++|+.+
T Consensus 4 r~~~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 4 RKVIRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CCCCBCTTTSCBSSCGGGCCSS
T ss_pred CCCCEEEECCccccCHhHCccc
Confidence 4567899999999999999765
No 30
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=97.28 E-value=0.00013 Score=48.70 Aligned_cols=26 Identities=31% Similarity=0.604 Sum_probs=22.4
Q ss_pred CCcceecCCCCCcCCCCCCCCCCCCC
Q 026649 205 PLIICRNCGGRGHMAYECPSGRIADR 230 (235)
Q Consensus 205 ~~~~C~~Cg~~GH~~~~Cp~~~~~~~ 230 (235)
....||+|++.|||++|||+...-++
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~~~~~ 47 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKPRGPR 47 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCCCSSC
T ss_pred CCCcceeCCCCCcccccCcCCccccC
Confidence 46899999999999999999766554
No 31
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=97.11 E-value=0.00011 Score=48.90 Aligned_cols=19 Identities=26% Similarity=0.730 Sum_probs=12.9
Q ss_pred CccccccCCCCccCCCCCC
Q 026649 186 DVICRSCNQMGHMSRDCVG 204 (235)
Q Consensus 186 ~~~C~~C~~~gH~~rdC~~ 204 (235)
...||+|+++|||++|||.
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSG
T ss_pred CCccccCCCcCcccccCCC
Confidence 3567777777777777763
No 32
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=96.81 E-value=0.00049 Score=45.70 Aligned_cols=21 Identities=33% Similarity=0.806 Sum_probs=18.5
Q ss_pred CCcceecCCCCCcCCCCCCCC
Q 026649 205 PLIICRNCGGRGHMAYECPSG 225 (235)
Q Consensus 205 ~~~~C~~Cg~~GH~~~~Cp~~ 225 (235)
....||+||+.|||+++||+.
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSGG
T ss_pred CCCccccCCCcCcccccCCCC
Confidence 367899999999999999943
No 33
>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=72.45 E-value=12 Score=24.89 Aligned_cols=40 Identities=28% Similarity=0.619 Sum_probs=31.1
Q ss_pred ccc-cccCC-------CCccCCCCCCCCcceecCCCCC-------cCCCCCCCCCC
Q 026649 187 VIC-RSCNQ-------MGHMSRDCVGPLIICRNCGGRG-------HMAYECPSGRI 227 (235)
Q Consensus 187 ~~C-~~C~~-------~gH~~rdC~~~~~~C~~Cg~~G-------H~~~~Cp~~~~ 227 (235)
+.| ..|++ ..|+..+||...+.|-.|+..- |. .+||....
T Consensus 17 v~C~~~C~~~v~r~~l~~H~~~~C~~r~v~C~~C~~~~~~~~l~~H~-~~Cp~~~v 71 (76)
T 2yuc_A 17 IPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDFSGEAYESHE-GMCPQESS 71 (76)
T ss_dssp CBCTTCCSCBCCSSSSTTTTTTSCTTSCCCCSSSCCCCCHHHHHHTT-TSCTTSSC
T ss_pred cCCCccccHHhhHhHHHhhCHhhCCCcceECCCCCCccCHHHHHHHH-hHCCCCcc
Confidence 566 56653 4799999999999999998877 88 68887543
No 34
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=61.84 E-value=2.6 Score=23.23 Aligned_cols=18 Identities=33% Similarity=0.628 Sum_probs=10.2
Q ss_pred cceecCCCCCcCCCCCCC
Q 026649 207 IICRNCGGRGHMAYECPS 224 (235)
Q Consensus 207 ~~C~~Cg~~GH~~~~Cp~ 224 (235)
.+|-+|..-||+..+|+.
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 355555556666666654
No 35
>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}
Probab=55.34 E-value=28 Score=23.01 Aligned_cols=23 Identities=17% Similarity=0.098 Sum_probs=13.0
Q ss_pred ccccccCCCC-------ccCCCCCCCCccee
Q 026649 187 VICRSCNQMG-------HMSRDCVGPLIICR 210 (235)
Q Consensus 187 ~~C~~C~~~g-------H~~rdC~~~~~~C~ 210 (235)
+.|-.|+..- |. .+||...+.|-
T Consensus 45 v~C~~C~~~~~~~~l~~H~-~~Cp~~~v~C~ 74 (76)
T 2yuc_A 45 LKCEFCGCDFSGEAYESHE-GMCPQESSGPS 74 (76)
T ss_dssp CCCSSSCCCCCHHHHHHTT-TSCTTSSCCCS
T ss_pred eECCCCCCccCHHHHHHHH-hHCCCCccCCC
Confidence 4555565543 66 46766555553
No 36
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=44.16 E-value=4.8 Score=35.82 Aligned_cols=7 Identities=14% Similarity=-0.111 Sum_probs=0.0
Q ss_pred CCCCCCC
Q 026649 145 VARQCPK 151 (235)
Q Consensus 145 ~~~~Cp~ 151 (235)
...++-+
T Consensus 268 ~~~~~~~ 274 (358)
T 2pk2_A 268 KADDRGT 274 (358)
T ss_dssp -------
T ss_pred cccCccc
Confidence 3344433
No 37
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=25.90 E-value=41 Score=24.67 Aligned_cols=15 Identities=47% Similarity=0.968 Sum_probs=6.6
Q ss_pred ccccccCc---cccCCCC
Q 026649 117 CKNCRKTG---HIARDCQ 131 (235)
Q Consensus 117 C~~Cg~~G---H~~~~Cp 131 (235)
|-.|+..| |+.+-||
T Consensus 74 CpiCGATGd~AHT~kYCP 91 (106)
T 3alr_A 74 CPLCGATGAKAHTKRFCP 91 (106)
T ss_dssp CTTTCCCGGGCCCGGGCT
T ss_pred CCCCCCcCCcccceecCC
Confidence 44444443 4444444
No 38
>2pzo_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskeleton associated protein, P150glued; 2.60A {Homo sapiens} PDB: 3e2u_E
Probab=25.50 E-value=22 Score=21.69 Aligned_cols=17 Identities=29% Similarity=0.874 Sum_probs=9.0
Q ss_pred ccccccCCCCccCCCCC
Q 026649 187 VICRSCNQMGHMSRDCV 203 (235)
Q Consensus 187 ~~C~~C~~~gH~~rdC~ 203 (235)
..|-+|.-.||+..+|+
T Consensus 21 pYCd~CEvFGH~t~~Cn 37 (42)
T 2pzo_E 21 PYCEICEMFGHWATNCN 37 (42)
T ss_dssp CEETTTTEESSCGGGCC
T ss_pred cccccccccCcccccCC
Confidence 34555555555555553
Done!