Query 007230
Match_columns 612
No_of_seqs 180 out of 238
Neff 3.0
Searched_HMMs 13730
Date Mon Mar 25 20:31:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007230.a3m -d /work/01045/syshi/HHdatabase/scop70.hhm -o /work/01045/syshi/hhsearch_scop/007230hhsearch_scop -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 d1nc8a_ g.40.1.1 (A:) HIV nucl 96.9 0.00014 1E-08 49.8 1.7 23 319-341 5-27 (29)
2 d2exfa1 g.40.1.1 (A:12-53) HIV 96.6 0.00038 2.7E-08 50.5 2.1 20 321-340 2-21 (42)
3 d2exfa1 g.40.1.1 (A:12-53) HIV 91.6 0.04 2.9E-06 39.6 2.2 19 320-338 22-40 (42)
4 d1dsqa_ g.40.1.1 (A:) Nucleic 87.7 0.12 8.9E-06 34.0 1.9 21 320-340 2-22 (26)
5 d1yfba1 b.129.1.3 (A:3-53) Tra 20.6 18 0.0013 26.9 1.5 17 384-400 17-33 (51)
6 d1a6bb_ g.40.1.1 (B:) Zinc fin 17.6 35 0.0025 24.2 2.3 21 318-338 8-28 (40)
7 d1p90a_ c.55.5.2 (A:) NafY cor 17.3 23 0.0017 28.4 1.6 16 388-406 106-121 (123)
8 d1sata2 d.92.1.6 (A:4-246) Met 13.1 87 0.0064 27.5 4.5 20 210-229 76-95 (243)
9 d1twfj_ a.4.11.1 (J:) RNA poly 12.9 24 0.0017 27.3 0.4 9 320-328 4-12 (65)
10 d1ef4a_ a.4.11.1 (A:) RNA poly 10.7 32 0.0023 25.8 0.5 9 320-328 3-11 (55)
No 1
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}
Probab=96.91 E-value=0.00014 Score=49.85 Aligned_cols=23 Identities=43% Similarity=1.041 Sum_probs=20.4
Q ss_pred CCCceecCCCCCCCCCCCCCccC
Q 007230 319 DASRCFNCGSYSHSLKECPKPRD 341 (612)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD 341 (612)
+...|||||-++|..++|--||-
T Consensus 5 ~~ikCfNCGkeGH~ar~CrAPRk 27 (29)
T d1nc8a_ 5 KVIRCWNCGKEGHSARQCRAPRR 27 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSSSS
T ss_pred ceeEeecCCccchhhhhccCccc
Confidence 35789999999999999999974
No 2
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}
Probab=96.60 E-value=0.00038 Score=50.53 Aligned_cols=20 Identities=45% Similarity=1.203 Sum_probs=15.4
Q ss_pred CceecCCCCCCCCCCCCCcc
Q 007230 321 SRCFNCGSYSHSLKECPKPR 340 (612)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PR 340 (612)
.+|||||..+|..++||.|+
T Consensus 2 i~C~~Cg~~GH~~~~Cp~~~ 21 (42)
T d2exfa1 2 VKCFNCGKEGHTARNCRAPR 21 (42)
T ss_dssp CCCTTTCCSSSCTTTCSSCC
T ss_pred CccccCCCcCcCcccCcCCC
Confidence 46888888888888888765
No 3
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}
Probab=91.63 E-value=0.04 Score=39.55 Aligned_cols=19 Identities=32% Similarity=1.020 Sum_probs=17.4
Q ss_pred CCceecCCCCCCCCCCCCC
Q 007230 320 ASRCFNCGSYSHSLKECPK 338 (612)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (612)
...||+||..+|..++||+
T Consensus 22 ~~~C~~Cg~~GH~~~~Cp~ 40 (42)
T d2exfa1 22 KKGCWKCGKEGHQMKDCTE 40 (42)
T ss_dssp CSSCSSSCCSSSCTTTCCS
T ss_pred cCccccCCCCCeecccCCC
Confidence 3579999999999999997
No 4
>d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]}
Probab=87.66 E-value=0.12 Score=34.03 Aligned_cols=21 Identities=29% Similarity=0.854 Sum_probs=17.7
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 007230 320 ASRCFNCGSYSHSLKECPKPR 340 (612)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (612)
.+.||.||-.+|.-+||....
T Consensus 2 gpvcfscgktghikkdck~e~ 22 (26)
T d1dsqa_ 2 GPVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC-
T ss_pred CCEEEecCCcccchhhhhhhh
Confidence 467999999999999998743
No 5
>d1yfba1 b.129.1.3 (A:3-53) Transcription-state regulator AbrB, the N-terminal DNA recognition domain {Bacillus subtilis [TaxId: 1423]}
Probab=20.65 E-value=18 Score=26.90 Aligned_cols=17 Identities=35% Similarity=0.569 Sum_probs=14.6
Q ss_pred CCCHHHHHHhCCCCCCC
Q 007230 384 ALDAETRQLLGLGELDP 400 (612)
Q Consensus 384 kLS~ELReALGm~~ndp 400 (612)
+|-.|||.+|||.++++
T Consensus 17 ViPkElR~~L~I~~~d~ 33 (51)
T d1yfba1 17 VIPIELRRTLGIAEKDA 33 (51)
T ss_dssp ECCHHHHHHTTCCTTCE
T ss_pred EccHHHHHhcCCCCCCc
Confidence 57899999999998764
No 6
>d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine leukemia virus, MoMLV [TaxId: 11801]}
Probab=17.60 E-value=35 Score=24.22 Aligned_cols=21 Identities=38% Similarity=0.770 Sum_probs=18.6
Q ss_pred cCCCceecCCCCCCCCCCCCC
Q 007230 318 DDASRCFNCGSYSHSLKECPK 338 (612)
Q Consensus 318 ~~~~rCFNCGs~eHsLrDCP~ 338 (612)
..+-.|--|-..+|-.+|||+
T Consensus 8 L~kDQCAyCke~GHW~~dCPk 28 (40)
T d1a6bb_ 8 LDRDQCAYCKEKGHWAKDCPK 28 (40)
T ss_dssp CCSSSCSSSCCTTCCTTSCSS
T ss_pred ccchhhHHHhhcCchhhhCcc
Confidence 346789999999999999997
No 7
>d1p90a_ c.55.5.2 (A:) NafY core domain {Azotobacter vinelandii [TaxId: 354]}
Probab=17.35 E-value=23 Score=28.40 Aligned_cols=16 Identities=38% Similarity=0.997 Sum_probs=11.7
Q ss_pred HHHHHhCCCCCCChHHHHH
Q 007230 388 ETRQLLGLGELDPPPWLHR 406 (612)
Q Consensus 388 ELReALGm~~ndpPPWLyr 406 (612)
.|++.|. ..|||||.+
T Consensus 106 ~l~~~l~---~~~p~~l~k 121 (123)
T d1p90a_ 106 ELQTVMA---GSPPPWLAK 121 (123)
T ss_dssp HHHHHHH---SCCCHHHHH
T ss_pred HHHHHhC---CCCChHHhh
Confidence 4556564 779999976
No 8
>d1sata2 d.92.1.6 (A:4-246) Metalloprotease {Serratia marcescens [TaxId: 615]}
Probab=13.07 E-value=87 Score=27.49 Aligned_cols=20 Identities=20% Similarity=0.498 Sum_probs=16.6
Q ss_pred cccCHhHHHHHHHHHHhhHH
Q 007230 210 NSLTRASKQKLEELLQQWSE 229 (612)
Q Consensus 210 ~~ltr~Sk~kL~elLqqWsE 229 (612)
..++.+.|+.+.++||.|++
T Consensus 76 ~~fs~~q~~~~r~a~~~Ws~ 95 (243)
T d1sata2 76 SKFSAEQQQQAKLSLQSWAD 95 (243)
T ss_dssp BCCCHHHHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHHh
Confidence 34567789999999999997
No 9
>d1twfj_ a.4.11.1 (J:) RNA polymerase subunit RPB10 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=12.90 E-value=24 Score=27.26 Aligned_cols=9 Identities=56% Similarity=1.538 Sum_probs=7.9
Q ss_pred CCceecCCC
Q 007230 320 ASRCFNCGS 328 (612)
Q Consensus 320 ~~rCFNCGs 328 (612)
..|||.||.
T Consensus 4 PVRCFTCgk 12 (65)
T d1twfj_ 4 PVRCFSCGK 12 (65)
T ss_dssp CSBCTTTCC
T ss_pred CcccCCCCc
Confidence 479999998
No 10
>d1ef4a_ a.4.11.1 (A:) RNA polymerase subunit RPB10 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=10.74 E-value=32 Score=25.80 Aligned_cols=9 Identities=44% Similarity=1.353 Sum_probs=7.8
Q ss_pred CCceecCCC
Q 007230 320 ASRCFNCGS 328 (612)
Q Consensus 320 ~~rCFNCGs 328 (612)
..|||.||-
T Consensus 3 PVRCFTCGk 11 (55)
T d1ef4a_ 3 PVRCLSCGK 11 (55)
T ss_dssp SSSCSCTTS
T ss_pred CcCcCCCch
Confidence 469999998
Done!