Query 013091
Match_columns 449
No_of_seqs 151 out of 218
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 04:02:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013091.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013091hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1nc8_A Nucleocapsid protein; H 95.5 0.0068 2.3E-07 40.2 2.3 24 46-70 6-29 (29)
2 1u6p_A GAG polyprotein; MLV, A 92.9 0.056 1.9E-06 41.4 2.7 26 46-71 23-48 (56)
3 1dsq_A Nucleic acid binding pr 92.2 0.058 2E-06 34.9 1.7 21 47-67 3-23 (26)
4 1a6b_B Momulv, zinc finger pro 88.4 0.21 7.3E-06 35.8 2.0 25 46-70 10-34 (40)
5 1cl4_A Protein (GAG polyprotei 88.2 0.23 7.9E-06 37.5 2.3 27 45-71 29-55 (60)
6 2ec7_A GAG polyprotein (PR55GA 87.5 0.24 8.1E-06 36.2 1.9 21 45-65 26-46 (49)
7 1a1t_A Nucleocapsid protein; s 87.3 0.26 8.8E-06 36.6 2.0 21 45-65 32-52 (55)
8 3nyb_B Protein AIR2; polya RNA 86.9 0.33 1.1E-05 39.6 2.6 20 46-65 46-65 (83)
9 2cqf_A RNA-binding protein LIN 86.7 0.32 1.1E-05 37.4 2.3 23 45-67 28-50 (63)
10 2cqf_A RNA-binding protein LIN 85.6 0.33 1.1E-05 37.3 1.8 24 45-68 6-29 (63)
11 2a51_A Nucleocapsid protein; s 85.2 0.37 1.3E-05 33.5 1.8 20 45-64 20-39 (39)
12 3ts2_A Protein LIN-28 homolog 81.8 0.55 1.9E-05 41.9 1.9 23 47-69 98-120 (148)
13 2li8_A Protein LIN-28 homolog 81.3 0.77 2.6E-05 36.6 2.4 23 44-66 22-44 (74)
14 2ihx_A Nucleocapsid (NC) prote 81.3 0.6 2E-05 35.5 1.7 22 47-68 31-52 (61)
15 3nyb_B Protein AIR2; polya RNA 81.3 0.54 1.8E-05 38.4 1.5 24 43-66 2-25 (83)
16 2a51_A Nucleocapsid protein; s 78.3 1 3.4E-05 31.3 1.9 17 48-64 2-18 (39)
17 2ysa_A Retinoblastoma-binding 77.7 1.6 5.4E-05 33.2 3.0 20 45-64 6-25 (55)
18 2li8_A Protein LIN-28 homolog 76.0 1.1 3.7E-05 35.8 1.7 23 45-67 45-67 (74)
19 2ec7_A GAG polyprotein (PR55GA 75.6 1.1 3.6E-05 32.7 1.5 21 45-65 5-25 (49)
20 2ihx_A Nucleocapsid (NC) prote 74.6 1.3 4.4E-05 33.7 1.8 21 46-66 4-24 (61)
21 3ts2_A Protein LIN-28 homolog 71.1 1.8 6.2E-05 38.5 2.2 24 46-69 119-142 (148)
22 2bl6_A Nucleocapsid protein P1 67.0 2.4 8.1E-05 29.0 1.6 17 48-64 2-18 (37)
23 1a1t_A Nucleocapsid protein; s 65.1 2.4 8.2E-05 31.2 1.4 21 45-65 11-31 (55)
24 2bl6_A Nucleocapsid protein P1 64.3 2.3 7.8E-05 29.1 1.1 18 47-64 20-37 (37)
25 1cl4_A Protein (GAG polyprotei 61.4 1.7 5.8E-05 32.6 0.0 20 47-66 2-21 (60)
26 2lli_A Protein AIR2; RNA surve 58.7 4.2 0.00014 34.5 2.0 23 45-67 63-85 (124)
27 2hqh_E Restin; beta/BETA struc 53.6 4 0.00014 26.9 0.8 18 47-64 4-21 (26)
28 2lli_A Protein AIR2; RNA surve 45.4 8.6 0.00029 32.5 1.8 20 45-64 104-123 (124)
29 3fac_A Putative uncharacterize 41.3 7.1 0.00024 32.6 0.7 53 45-100 66-118 (118)
30 3eop_A Thymocyte nuclear prote 40.2 12 0.0004 34.8 1.9 43 204-256 86-129 (176)
31 2ar1_A Hypothetical protein; s 38.7 12 0.00042 34.5 1.8 18 204-223 93-110 (172)
32 2eve_A Hypothetical protein ps 38.6 12 0.00042 34.0 1.8 18 204-223 75-92 (157)
33 2e6i_A Tyrosine-protein kinase 26.2 20 0.0007 28.0 0.9 31 342-378 5-35 (64)
34 1kil_E Complexin I snare-compl 24.0 1.2E+02 0.004 22.6 4.5 18 285-302 31-48 (49)
35 1q42_A MTR2, mRNA transport re 22.2 21 0.0007 33.7 0.3 12 350-361 153-164 (201)
36 2pzo_E CAP-Gly domain-containi 21.5 28 0.00095 25.3 0.8 18 47-64 21-38 (42)
No 1
>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=95.50 E-value=0.0068 Score=40.24 Aligned_cols=24 Identities=42% Similarity=0.857 Sum_probs=20.2
Q ss_pred cccccccccCCCCcccccCcccccc
Q 013091 46 KGACANCGAMTHDAKSCMERPRKMG 70 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClERPRK~g 70 (449)
...|-|||..+|-.++|-. |||+|
T Consensus 6 ~~~C~nCgk~GH~ar~C~~-prkkg 29 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRA-PRRQG 29 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCS-SSSCC
T ss_pred CCEEEECCccccCHhHCcc-cccCC
Confidence 4679999999999999975 67765
No 2
>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=92.94 E-value=0.056 Score=41.43 Aligned_cols=26 Identities=35% Similarity=0.657 Sum_probs=23.2
Q ss_pred cccccccccCCCCcccccCccccccc
Q 013091 46 KGACANCGAMTHDAKSCMERPRKMGA 71 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClERPRK~gA 71 (449)
+..|-|||..+|-.+||-.+||+...
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~~~~~~ 48 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKPRGPRG 48 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCCCSSCS
T ss_pred CCcceeCCCCCcccccCcCCccccCC
Confidence 67899999999999999999987654
No 3
>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=92.20 E-value=0.058 Score=34.91 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=17.5
Q ss_pred ccccccccCCCCcccccCccc
Q 013091 47 GACANCGAMTHDAKSCMERPR 67 (449)
Q Consensus 47 GACeNCGAmtHk~KDClERPR 67 (449)
+.|=|||..+|-.+||.++++
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEXX 23 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC--
T ss_pred CeeEeCCCCCcccccCCCccc
Confidence 469999999999999988754
No 4
>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=88.39 E-value=0.21 Score=35.78 Aligned_cols=25 Identities=36% Similarity=0.676 Sum_probs=21.9
Q ss_pred cccccccccCCCCcccccCcccccc
Q 013091 46 KGACANCGAMTHDAKSCMERPRKMG 70 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClERPRK~g 70 (449)
+..|-|||-.+|-++||-.++++-.
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 6789999999999999999887543
No 5
>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=88.22 E-value=0.23 Score=37.47 Aligned_cols=27 Identities=26% Similarity=0.549 Sum_probs=23.5
Q ss_pred ccccccccccCCCCcccccCccccccc
Q 013091 45 RKGACANCGAMTHDAKSCMERPRKMGA 71 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPRK~gA 71 (449)
+.+.|-+||...|..+||.++..+.|.
T Consensus 29 ~~~~C~~Cg~~GH~ar~C~~~~~~~G~ 55 (60)
T 1cl4_A 29 VPGLCPRCKRGKHWANECKSKTDNQGN 55 (60)
T ss_dssp CCCSCSSCSSCSSCSTTCCCTTSSSSC
T ss_pred CCcceeECCCCCCccCcCCCccccCCC
Confidence 467899999999999999999877664
No 6
>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=87.52 E-value=0.24 Score=36.25 Aligned_cols=21 Identities=38% Similarity=0.811 Sum_probs=16.7
Q ss_pred ccccccccccCCCCcccccCc
Q 013091 45 RKGACANCGAMTHDAKSCMER 65 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClER 65 (449)
+++.|-+||..+|..+||.++
T Consensus 26 ~~~~C~~Cg~~GH~~~~C~~~ 46 (49)
T 2ec7_A 26 RRQGCWKCGKTGHVMAKCPER 46 (49)
T ss_dssp SCCSCSSSCCSSCCGGGCCSS
T ss_pred CCCeeCcCCCcCCccCCCcCC
Confidence 456788888888888888765
No 7
>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=87.26 E-value=0.26 Score=36.58 Aligned_cols=21 Identities=48% Similarity=0.947 Sum_probs=13.3
Q ss_pred ccccccccccCCCCcccccCc
Q 013091 45 RKGACANCGAMTHDAKSCMER 65 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClER 65 (449)
|++.|-+||..+|..+||.++
T Consensus 32 ~~~~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 32 RKKGCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp SCCBCTTTCCBSSCGGGCSSS
T ss_pred CCCEeCCCCCcCCccCCCcCc
Confidence 345666666666666666554
No 8
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=86.91 E-value=0.33 Score=39.65 Aligned_cols=20 Identities=35% Similarity=0.700 Sum_probs=18.1
Q ss_pred cccccccccCCCCcccccCc
Q 013091 46 KGACANCGAMTHDAKSCMER 65 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClER 65 (449)
.-.|=|||..+|-.+||-++
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSC
T ss_pred CCeecccCCCCcCcccCCcc
Confidence 35799999999999999986
No 9
>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=86.70 E-value=0.32 Score=37.36 Aligned_cols=23 Identities=22% Similarity=0.556 Sum_probs=16.8
Q ss_pred ccccccccccCCCCcccccCccc
Q 013091 45 RKGACANCGAMTHDAKSCMERPR 67 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPR 67 (449)
+...|-|||...|..+||.++++
T Consensus 28 ~~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 28 QPKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp CSSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCCccCCcCCcCCccCcCCCccc
Confidence 35678888888888888877663
No 10
>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=85.61 E-value=0.33 Score=37.32 Aligned_cols=24 Identities=38% Similarity=0.830 Sum_probs=20.3
Q ss_pred ccccccccccCCCCcccccCcccc
Q 013091 45 RKGACANCGAMTHDAKSCMERPRK 68 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPRK 68 (449)
|...|-|||...|..++|.+.++.
T Consensus 6 r~~~C~~Cg~~GH~a~~C~~~~~~ 29 (63)
T 2cqf_A 6 SGDRCYNCGGLDHHAKECKLPPQP 29 (63)
T ss_dssp SCCCCSSSCCSSSCTTTCCSCCCS
T ss_pred CCCcccccCCCCcChhhCCCCCCC
Confidence 456799999999999999886554
No 11
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=85.21 E-value=0.37 Score=33.51 Aligned_cols=20 Identities=35% Similarity=0.813 Sum_probs=16.9
Q ss_pred ccccccccccCCCCcccccC
Q 013091 45 RKGACANCGAMTHDAKSCME 64 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClE 64 (449)
|+..|-|||..+|..+||.+
T Consensus 20 ~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 20 RQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CCSSCTTTCCSSSCTTTSCC
T ss_pred CCCccccCCCCCCccCcCcC
Confidence 56789999999999999953
No 12
>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=81.80 E-value=0.55 Score=41.88 Aligned_cols=23 Identities=39% Similarity=0.865 Sum_probs=18.7
Q ss_pred ccccccccCCCCcccccCccccc
Q 013091 47 GACANCGAMTHDAKSCMERPRKM 69 (449)
Q Consensus 47 GACeNCGAmtHk~KDClERPRK~ 69 (449)
..|-|||..+|..++|-..|+.+
T Consensus 98 ~~C~~Cg~~GH~a~~C~~~~~~~ 120 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKLPPQPK 120 (148)
T ss_dssp CCCTTTCCSSCCGGGCCSCCCCC
T ss_pred CcccEeCCccchhhhCCCCCCCC
Confidence 46999999999999998877643
No 13
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=81.34 E-value=0.77 Score=36.63 Aligned_cols=23 Identities=39% Similarity=0.868 Sum_probs=14.3
Q ss_pred cccccccccccCCCCcccccCcc
Q 013091 44 YRKGACANCGAMTHDAKSCMERP 66 (449)
Q Consensus 44 yRKGACeNCGAmtHk~KDClERP 66 (449)
.|...|-|||..+|..++|...+
T Consensus 22 ~r~~~C~~Cg~~GH~a~~C~~~~ 44 (74)
T 2li8_A 22 SKGDRCYNCGGLDHHAKECKLPP 44 (74)
T ss_dssp STTSCCTTTCCSSSCTTTCSSCC
T ss_pred CCCCcccccCCcCcCcccCCCCC
Confidence 34456777777777777775533
No 14
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=81.33 E-value=0.6 Score=35.52 Aligned_cols=22 Identities=36% Similarity=0.777 Sum_probs=17.2
Q ss_pred ccccccccCCCCcccccCcccc
Q 013091 47 GACANCGAMTHDAKSCMERPRK 68 (449)
Q Consensus 47 GACeNCGAmtHk~KDClERPRK 68 (449)
+.|-|||.+.|..+||.++..-
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~~~~ 52 (61)
T 2ihx_A 31 ERCQLCNGMGHNAKQCRKRDGN 52 (61)
T ss_dssp SBCTTTCCBSSCGGGCCCCC--
T ss_pred CeeCCCCCCCCCcCCCcCCCcC
Confidence 5699999999999999887643
No 15
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=81.28 E-value=0.54 Score=38.39 Aligned_cols=24 Identities=21% Similarity=0.486 Sum_probs=17.2
Q ss_pred ccccccccccccCCCCcccccCcc
Q 013091 43 KYRKGACANCGAMTHDAKSCMERP 66 (449)
Q Consensus 43 KyRKGACeNCGAmtHk~KDClERP 66 (449)
|++.-.|-|||.++|..++|.+-.
T Consensus 2 ~~k~~~C~~Cg~~GH~~~~Cp~~~ 25 (83)
T 3nyb_B 2 SWKKVQCTLCKSKKHSKERCPSIW 25 (83)
T ss_dssp -----CCSSSCCSSSCGGGCGGGT
T ss_pred CcccCCCCCCCCCCCccccCCCcc
Confidence 567788999999999999998743
No 16
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=78.30 E-value=1 Score=31.28 Aligned_cols=17 Identities=41% Similarity=0.960 Sum_probs=15.7
Q ss_pred cccccccCCCCcccccC
Q 013091 48 ACANCGAMTHDAKSCME 64 (449)
Q Consensus 48 ACeNCGAmtHk~KDClE 64 (449)
.|-|||..+|..++|..
T Consensus 2 ~C~~Cg~~GH~a~~C~~ 18 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQ 18 (39)
T ss_dssp BCTTTCCBSSCTTTCCS
T ss_pred eeeccCCCCcccccCCC
Confidence 48999999999999986
No 17
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=77.72 E-value=1.6 Score=33.23 Aligned_cols=20 Identities=30% Similarity=0.575 Sum_probs=17.2
Q ss_pred ccccccccccCCCCcccccC
Q 013091 45 RKGACANCGAMTHDAKSCME 64 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClE 64 (449)
++..|=.||..+|-.++|-.
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSG
T ss_pred CCCccccCCCcCcccccCCC
Confidence 35579999999999999964
No 18
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=76.04 E-value=1.1 Score=35.78 Aligned_cols=23 Identities=22% Similarity=0.556 Sum_probs=20.1
Q ss_pred ccccccccccCCCCcccccCccc
Q 013091 45 RKGACANCGAMTHDAKSCMERPR 67 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPR 67 (449)
+...|-+||..+|..+||.+++.
T Consensus 45 ~~~~C~~Cg~~GH~ar~Cp~~~~ 67 (74)
T 2li8_A 45 QPKKCHFCQSISHMVASCPLKAQ 67 (74)
T ss_dssp CCCCCTTTCCTTSCGGGCTTGGG
T ss_pred CCCccCCcCCcCCccCcCcCCcC
Confidence 45789999999999999988763
No 19
>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=75.65 E-value=1.1 Score=32.72 Aligned_cols=21 Identities=33% Similarity=0.681 Sum_probs=18.3
Q ss_pred ccccccccccCCCCcccccCc
Q 013091 45 RKGACANCGAMTHDAKSCMER 65 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClER 65 (449)
|...|-|||..+|..++|...
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~ 25 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAP 25 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCS
T ss_pred CcCeeeecCCCCcChhhCcCC
Confidence 457899999999999999773
No 20
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=74.64 E-value=1.3 Score=33.65 Aligned_cols=21 Identities=29% Similarity=0.770 Sum_probs=18.3
Q ss_pred cccccccccCCCCcccccCcc
Q 013091 46 KGACANCGAMTHDAKSCMERP 66 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClERP 66 (449)
...|-|||...|..++|...+
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~ 24 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKR 24 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTT
T ss_pred CCcccccCCCCeehhhCcCCc
Confidence 467999999999999997754
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=71.07 E-value=1.8 Score=38.48 Aligned_cols=24 Identities=21% Similarity=0.470 Sum_probs=20.5
Q ss_pred cccccccccCCCCcccccCccccc
Q 013091 46 KGACANCGAMTHDAKSCMERPRKM 69 (449)
Q Consensus 46 KGACeNCGAmtHk~KDClERPRK~ 69 (449)
...|-+||..+|..+||.++|..-
T Consensus 119 ~~~C~~Cg~~GH~~r~Cp~~~~~~ 142 (148)
T 3ts2_A 119 PKKCHFCQSINHMVASCPLKAQQG 142 (148)
T ss_dssp CCCCTTTCCSSCCGGGCTTTTC--
T ss_pred CCcccccCCcCCEeccCcCCCCCC
Confidence 468999999999999999998763
No 22
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=66.97 E-value=2.4 Score=28.98 Aligned_cols=17 Identities=35% Similarity=0.806 Sum_probs=15.0
Q ss_pred cccccccCCCCcccccC
Q 013091 48 ACANCGAMTHDAKSCME 64 (449)
Q Consensus 48 ACeNCGAmtHk~KDClE 64 (449)
.|-|||..+|..++|..
T Consensus 2 ~C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRA 18 (37)
T ss_dssp CBSSSCCSSCCTTTSSC
T ss_pred cccccCCCCcchhhCcC
Confidence 48899999999999965
No 23
>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=65.07 E-value=2.4 Score=31.23 Aligned_cols=21 Identities=38% Similarity=0.703 Sum_probs=18.0
Q ss_pred ccccccccccCCCCcccccCc
Q 013091 45 RKGACANCGAMTHDAKSCMER 65 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClER 65 (449)
|...|-|||..+|..++|...
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSC
T ss_pred CCcceeeeCCCCcChhhcCCC
Confidence 346799999999999999763
No 24
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=64.33 E-value=2.3 Score=29.07 Aligned_cols=18 Identities=28% Similarity=0.587 Sum_probs=16.2
Q ss_pred ccccccccCCCCcccccC
Q 013091 47 GACANCGAMTHDAKSCME 64 (449)
Q Consensus 47 GACeNCGAmtHk~KDClE 64 (449)
+.|-+||..+|..+||.+
T Consensus 20 ~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 20 KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp TTCSSCCCTTGGGGTTCC
T ss_pred CeEccCCCcCCccCcCcC
Confidence 679999999999999953
No 25
>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=61.41 E-value=1.7 Score=32.63 Aligned_cols=20 Identities=45% Similarity=0.926 Sum_probs=0.0
Q ss_pred ccccccccCCCCcccccCcc
Q 013091 47 GACANCGAMTHDAKSCMERP 66 (449)
Q Consensus 47 GACeNCGAmtHk~KDClERP 66 (449)
+.|-|||...|..++|-..+
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~ 21 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHA 21 (60)
T ss_dssp --------------------
T ss_pred CccccCCCCCcCHhhCcCCC
Confidence 46999999999999998754
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=58.74 E-value=4.2 Score=34.49 Aligned_cols=23 Identities=26% Similarity=0.514 Sum_probs=18.7
Q ss_pred ccccccccccCCCCcccccCccc
Q 013091 45 RKGACANCGAMTHDAKSCMERPR 67 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPR 67 (449)
+...|-+||.++|..+||.+..|
T Consensus 63 ~~~~C~~Cg~~GH~~~~Cp~~~~ 85 (124)
T 2lli_A 63 KKVQCTLCKSKKHSKERCPSIWR 85 (124)
T ss_dssp CCCSSSSSCSSCCCTTTCCCSTT
T ss_pred cCccCCCCCcCCcchhhCCCccc
Confidence 45679999999999999987665
No 27
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=53.57 E-value=4 Score=26.87 Aligned_cols=18 Identities=28% Similarity=0.586 Sum_probs=15.8
Q ss_pred ccccccccCCCCcccccC
Q 013091 47 GACANCGAMTHDAKSCME 64 (449)
Q Consensus 47 GACeNCGAmtHk~KDClE 64 (449)
-.|++|..-+|.+-+|-+
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 369999999999999954
No 28
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=45.43 E-value=8.6 Score=32.52 Aligned_cols=20 Identities=35% Similarity=0.665 Sum_probs=17.8
Q ss_pred ccccccccccCCCCcccccC
Q 013091 45 RKGACANCGAMTHDAKSCME 64 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClE 64 (449)
....|-|||.++|-.+||.+
T Consensus 104 ~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 104 HTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp CCCCTTTTSSSCTTTTTSCC
T ss_pred CCCCcCCCCCCCcCcccCcC
Confidence 35789999999999999975
No 29
>3fac_A Putative uncharacterized protein; complete proteome, structural genomics, PSI-2, protein structure initiative; 2.50A {Rhodobacter sphaeroides 2}
Probab=41.27 E-value=7.1 Score=32.61 Aligned_cols=53 Identities=17% Similarity=0.339 Sum_probs=18.1
Q ss_pred ccccccccccCCCCcccccCccccccccccCCcCCCCcceeccccccccccCccCC
Q 013091 45 RKGACANCGAMTHDAKSCMERPRKMGAKWTNINIAPDEKIETFELDYDGKRDRWNG 100 (449)
Q Consensus 45 RKGACeNCGAmtHk~KDClERPRK~gAk~t~~~I~~De~iq~~~ldyDaKRDRWnG 100 (449)
+.+.|.+||+..+-... ..|-.++-...--|=.....+..+.+ ||+..+.|.+
T Consensus 66 ~r~FC~~CGs~l~~~~~--~~~~~~~V~~g~ld~~~~~~l~~~~~-~dG~~~~~~~ 118 (118)
T 3fac_A 66 KHWFCRTCGIYTHHQRR--SNPEEYGVNVAILEGVNPRDLGEVPW-TDGVNHPSDR 118 (118)
T ss_dssp EEEEETTTCCEEEEECS--SCTTEEEEEGGGBTTCCGGGGCSCCC-C---------
T ss_pred eeEECCCCCccccCccC--CCCCEEEEEecccCCCChHHcccccc-cCCCCCCCCC
Confidence 45789999997654321 12322221111111011112222333 7999999964
No 30
>3eop_A Thymocyte nuclear protein 1; unknown function, nucleus, phosphoprotein; 2.30A {Homo sapiens} SCOP: b.122.1.0
Probab=40.18 E-value=12 Score=34.79 Aligned_cols=43 Identities=23% Similarity=0.412 Sum_probs=26.1
Q ss_pred cCCCCCCcccCCCcccccCCCCCCCCCCCCCCCC-CceecccchHHHHHHHHHH
Q 013091 204 NLDVNSAHYDPKTRSMREDPLPDADPNDKFYGGD-NQYRNSGQALEFKELNIHA 256 (449)
Q Consensus 204 NLd~nSa~YDPKSRsMRe~p~~~~d~~~~~f~Gd-NFvR~SGea~e~~~lQ~FA 256 (449)
-.|++|.||||||-. +||- .|.=| -|++.-.-...+..|...+
T Consensus 86 ~fDp~s~YyDpkS~~--~~pr--------W~~VdV~~v~~~~~~vtL~eLK~~~ 129 (176)
T 3eop_A 86 QFEKNNPHYDPSSKE--DNPK--------WSMVDVQFVRMMKRFIPLAELKSYH 129 (176)
T ss_dssp GTCTTSTTCCTTCCT--TSCS--------CEEEEEEEEEEEEEEEEHHHHHHHH
T ss_pred ccCCCCCCCCccCcC--CCCC--------EEEEEEEEeeecCCcccHHHHhcCc
Confidence 379999999999833 4442 23323 3555555555666665553
No 31
>2ar1_A Hypothetical protein; structural genomics, PSI, protein structure initiative, STRU genomics of pathogenic protozoa consortium, SGPP, unknown F; 1.60A {Leishmania major} SCOP: b.122.1.8
Probab=38.74 E-value=12 Score=34.49 Aligned_cols=18 Identities=39% Similarity=0.584 Sum_probs=14.2
Q ss_pred cCCCCCCcccCCCcccccCC
Q 013091 204 NLDVNSAHYDPKTRSMREDP 223 (449)
Q Consensus 204 NLd~nSa~YDPKSRsMRe~p 223 (449)
..|++|.||||||.- ++|
T Consensus 93 ~fdp~s~YyDpks~~--~~p 110 (172)
T 2ar1_A 93 ALDKTSEYFDPKATK--EKN 110 (172)
T ss_dssp GGCTTSTTCCTTCCS--SCC
T ss_pred cccccCcccCcccCC--CCC
Confidence 469999999999863 555
No 32
>2eve_A Hypothetical protein pspto5229; alpha-beta protein, structural genomics, PSI, protein struct initiative; HET: MPO; 1.60A {Pseudomonas syringae PV} SCOP: b.122.1.8 PDB: 2g2x_A
Probab=38.56 E-value=12 Score=33.98 Aligned_cols=18 Identities=33% Similarity=0.355 Sum_probs=14.2
Q ss_pred cCCCCCCcccCCCcccccCC
Q 013091 204 NLDVNSAHYDPKTRSMREDP 223 (449)
Q Consensus 204 NLd~nSa~YDPKSRsMRe~p 223 (449)
..|++|.||||||-- ++|
T Consensus 75 ~fdp~s~YyDpks~~--~~p 92 (157)
T 2eve_A 75 ALDPDSHYHDAKATT--EKN 92 (157)
T ss_dssp GGCTTSTTCCTTCCS--SCC
T ss_pred cccccCcCcCcccCC--CCC
Confidence 579999999999853 554
No 33
>2e6i_A Tyrosine-protein kinase ITK/TSK; BTK, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=26.17 E-value=20 Score=28.03 Aligned_cols=31 Identities=26% Similarity=0.674 Sum_probs=20.6
Q ss_pred ccchhhhccCCCcccccccccCCcccccccccccccc
Q 013091 342 SKYEEDVYINNHTCVWGSWWKDHQWGYKCCKQVIRNS 378 (449)
Q Consensus 342 SkY~EDv~~~nHtsVwGS~~~~~~WGy~CC~s~~k~S 378 (449)
|++..+.+..-|..+| .+|+| .||+++.|+.
T Consensus 5 s~~N~~ll~~yHPg~~----~~GkW--~CC~q~~k~a 35 (64)
T 2e6i_A 5 SSGNNSLVPKYHPNFW----MDGKW--RCCSQLEKLA 35 (64)
T ss_dssp CCCCCSSCCEECSSCB----CSSSB--SSSCCSCTTC
T ss_pred cccChhhhhhcCCCce----eCCeE--CCCCCCCccC
Confidence 4555555555566555 56665 7999998875
No 34
>1kil_E Complexin I snare-complex binding region; helix bound to four helix bundle, membrane protein; 2.30A {Rattus norvegicus} SCOP: h.1.15.1
Probab=24.03 E-value=1.2e+02 Score=22.65 Aligned_cols=18 Identities=22% Similarity=0.412 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHhc
Q 013091 285 IKDKLKSRTKETIMEKYG 302 (449)
Q Consensus 285 kke~~k~~~k~~il~KYG 302 (449)
+-+......++.|-+|||
T Consensus 31 kmE~eRE~mRq~IRdKY~ 48 (49)
T 1kil_E 31 KMEAEREVMRQGIRDKYG 48 (49)
T ss_dssp HHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 556677888999999998
No 35
>1q42_A MTR2, mRNA transport regulator MTR2; NTF2-fold, nuclear export, translation; 1.75A {Candida albicans} SCOP: d.17.4.2 PDB: 1q40_A
Probab=22.24 E-value=21 Score=33.74 Aligned_cols=12 Identities=42% Similarity=1.221 Sum_probs=7.7
Q ss_pred cCCCcccccccc
Q 013091 350 INNHTCVWGSWW 361 (449)
Q Consensus 350 ~~nHtsVwGS~~ 361 (449)
.+++..||||||
T Consensus 153 ~~~~Rp~wg~~f 164 (201)
T 1q42_A 153 KTNQRPIWGSWF 164 (201)
T ss_dssp ----CCCBCCCE
T ss_pred CCCCCccccccc
Confidence 567899999999
No 36
>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=21.50 E-value=28 Score=25.28 Aligned_cols=18 Identities=28% Similarity=0.586 Sum_probs=15.9
Q ss_pred ccccccccCCCCcccccC
Q 013091 47 GACANCGAMTHDAKSCME 64 (449)
Q Consensus 47 GACeNCGAmtHk~KDClE 64 (449)
-.|++|..-+|-+.+|-+
T Consensus 21 pYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 21 PYCEICEMFGHWATNCND 38 (42)
T ss_dssp CEETTTTEESSCGGGCCT
T ss_pred cccccccccCcccccCCc
Confidence 469999999999999954
Done!