Query 013320
Match_columns 445
No_of_seqs 105 out of 117
Neff 3.5
Searched_HMMs 29240
Date Mon Mar 25 08:22:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013320.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013320hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1yuz_A Nigerythrin; rubrythrin 27.8 1.1E+02 0.0036 28.1 6.2 32 160-191 167-198 (202)
2 1nc8_A Nucleocapsid protein; H 25.8 32 0.0011 22.4 1.7 20 337-361 7-26 (29)
3 1lko_A Rubrerythrin all-iron(I 22.0 1.9E+02 0.0064 26.0 6.6 30 162-191 153-183 (191)
4 1dsq_A Nucleic acid binding pr 19.5 37 0.0013 21.6 1.0 20 166-190 4-23 (26)
5 1a6b_B Momulv, zinc finger pro 18.1 67 0.0023 22.9 2.2 25 165-194 11-35 (40)
6 1u6p_A GAG polyprotein; MLV, A 14.8 83 0.0028 23.9 2.1 23 337-364 24-46 (56)
7 1una_A GA unassembled coat pro 14.2 36 0.0012 29.6 -0.1 31 407-438 63-94 (129)
8 2ysa_A Retinoblastoma-binding 13.7 58 0.002 24.7 0.9 17 165-186 8-24 (55)
9 1yuz_A Nigerythrin; rubrythrin 12.6 96 0.0033 28.4 2.3 31 332-362 167-197 (202)
10 1msc_A Bacteriophage MS2 coat 11.3 49 0.0017 28.7 -0.2 24 415-438 71-95 (129)
No 1
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A
Probab=27.84 E-value=1.1e+02 Score=28.14 Aligned_cols=32 Identities=13% Similarity=0.149 Sum_probs=23.0
Q ss_pred ceEeeeccCCCCCceecCCCCccccccCCccc
Q 013320 160 HVIPVYGCSECSEVHVAHSGHHIQNCQGATAA 191 (445)
Q Consensus 160 ~v~pV~~C~~C~EVHVG~~GH~irtC~g~k~~ 191 (445)
+...++.|..|.-||.|...-.=..|++.+..
T Consensus 167 ~~~~~~~C~~CG~i~~g~~p~~CP~C~~~k~~ 198 (202)
T 1yuz_A 167 DDDKFHLCPICGYIHKGEDFEKCPICFRPKDT 198 (202)
T ss_dssp CSCCEEECSSSCCEEESSCCSBCTTTCCBGGG
T ss_pred CCCcEEEECCCCCEEcCcCCCCCCCCCCChHH
Confidence 34578999999999998544444567766553
No 2
>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=25.78 E-value=32 Score=22.36 Aligned_cols=20 Identities=35% Similarity=0.718 Sum_probs=15.2
Q ss_pred cccCCCCCeeecCCCCcccccCCCc
Q 013320 337 KACGYCPEVHIGPWGHNVKLCGAFK 361 (445)
Q Consensus 337 ~~C~yC~EVHVG~~GHkir~C~~~k 361 (445)
..|-+| |-.||.+++|...+
T Consensus 7 ~~C~nC-----gk~GH~ar~C~~pr 26 (29)
T 1nc8_A 7 IRCWNC-----GKEGHSARQCRAPR 26 (29)
T ss_dssp CBCTTT-----SCBSSCGGGCCSSS
T ss_pred CEEEEC-----CccccCHhHCcccc
Confidence 357777 55699999998764
No 3
>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A
Probab=22.01 E-value=1.9e+02 Score=26.03 Aligned_cols=30 Identities=20% Similarity=0.412 Sum_probs=22.0
Q ss_pred EeeeccCCCCCceec-CCCCccccccCCccc
Q 013320 162 IPVYGCSECSEVHVA-HSGHHIQNCQGATAA 191 (445)
Q Consensus 162 ~pV~~C~~C~EVHVG-~~GH~irtC~g~k~~ 191 (445)
..++.|..|.-||.| ...-.=..|++.+..
T Consensus 153 ~~~~~C~~CG~~~~g~~~p~~CP~C~~~k~~ 183 (191)
T 1lko_A 153 ATKWRCRNCGYVHEGTGAPELCPACAHPKAH 183 (191)
T ss_dssp EEEEEETTTCCEEEEEECCSBCTTTCCBGGG
T ss_pred CceEEECCCCCEeeCCCCCCCCCCCcCCHHH
Confidence 348999999999998 334455667776654
No 4
>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=19.53 E-value=37 Score=21.61 Aligned_cols=20 Identities=25% Similarity=0.662 Sum_probs=14.0
Q ss_pred ccCCCCCceecCCCCccccccCCcc
Q 013320 166 GCSECSEVHVAHSGHHIQNCQGATA 190 (445)
Q Consensus 166 ~C~~C~EVHVG~~GH~irtC~g~k~ 190 (445)
.|-.| |..||..++|...+.
T Consensus 4 ~Cf~C-----G~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 4 VCFSC-----GKTGHIKRDCKEEXX 23 (26)
T ss_dssp BCTTT-----CCBSSCTTTTTCC--
T ss_pred eeEeC-----CCCCcccccCCCccc
Confidence 46566 567999999987654
No 5
>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=18.09 E-value=67 Score=22.88 Aligned_cols=25 Identities=24% Similarity=0.611 Sum_probs=18.9
Q ss_pred eccCCCCCceecCCCCccccccCCcccccc
Q 013320 165 YGCSECSEVHVAHSGHHIQNCQGATAAKRR 194 (445)
Q Consensus 165 ~~C~~C~EVHVG~~GH~irtC~g~k~~~R~ 194 (445)
..|-+|. ..||.+++|--.....|.
T Consensus 11 ~~C~~Cg-----k~GH~ardCP~~~~~~r~ 35 (40)
T 1a6b_B 11 DQCAYCK-----EKGHWAKDCPKKPRGPRG 35 (40)
T ss_dssp SSCSSSC-----CTTCCTTSCSSSCCCTTC
T ss_pred CeeeECC-----CCCcchhhCcCCcccCCC
Confidence 4688884 579999999887766553
No 6
>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=14.83 E-value=83 Score=23.87 Aligned_cols=23 Identities=35% Similarity=0.575 Sum_probs=17.7
Q ss_pred cccCCCCCeeecCCCCcccccCCCcccc
Q 013320 337 KACGYCPEVHIGPWGHNVKLCGAFKHQW 364 (445)
Q Consensus 337 ~~C~yC~EVHVG~~GHkir~C~~~k~q~ 364 (445)
-.|-+|.| .||.+++|--.+...
T Consensus 24 ~~C~~Cge-----~GH~ardCp~~~~~~ 46 (56)
T 1u6p_A 24 DQCAYCKE-----KGHWAKDCPKKPRGP 46 (56)
T ss_dssp TBCSSSCC-----BSSCGGGCTTCCCSS
T ss_pred CcceeCCC-----CCcccccCcCCcccc
Confidence 35999966 799999998765433
No 7
>1una_A GA unassembled coat protein dimer; unassembled virus coat protein dimer, bacteriophage, RNA- binding dimer, translational repressor; 2.80A {Enterobacteria phage GA} SCOP: d.85.1.1 PDB: 1gav_A
Probab=14.15 E-value=36 Score=29.56 Aligned_cols=31 Identities=23% Similarity=0.505 Sum_probs=19.2
Q ss_pred CchhhhhHHHcCCCCCCC-CcccccccccCCCC
Q 013320 407 APAVVEVCMQAGAQVPEQ-YKPTMRLDIIVPES 438 (445)
Q Consensus 407 ~PAVVELCiQAGa~vP~~-y~~~mr~d~~~p~~ 438 (445)
+|-|+- =+|.|+++|.. |++.|.+|..||-.
T Consensus 63 vpkv~t-qv~~gvelpvaawrsy~~meltipif 94 (129)
T 1una_A 63 VPKIVT-QVVNGVELPVSAWKAYASIDLTIPIF 94 (129)
T ss_dssp EECCC--------CCSSCCCEEEEEEEEEEECC
T ss_pred cchhhe-eecCcEEeeHHHHHhhhcceEeeeEE
Confidence 344443 36899999988 99999999998854
No 8
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=13.67 E-value=58 Score=24.68 Aligned_cols=17 Identities=47% Similarity=1.171 Sum_probs=13.5
Q ss_pred eccCCCCCceecCCCCcccccc
Q 013320 165 YGCSECSEVHVAHSGHHIQNCQ 186 (445)
Q Consensus 165 ~~C~~C~EVHVG~~GH~irtC~ 186 (445)
+.|--| |..||.|++|-
T Consensus 8 ~~C~kC-----Gk~GH~~k~Cp 24 (55)
T 2ysa_A 8 YTCFRC-----GKPGHYIKNCP 24 (55)
T ss_dssp CCCTTT-----CCTTSCGGGCS
T ss_pred CccccC-----CCcCcccccCC
Confidence 467777 56899999995
No 9
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A
Probab=12.63 E-value=96 Score=28.42 Aligned_cols=31 Identities=19% Similarity=0.270 Sum_probs=21.6
Q ss_pred ceeeecccCCCCCeeecCCCCcccccCCCcc
Q 013320 332 RKYSVKACGYCPEVHIGPWGHNVKLCGAFKH 362 (445)
Q Consensus 332 ~~ypV~~C~yC~EVHVG~~GHkir~C~~~k~ 362 (445)
.....+.|..|.-||.|-..-.--.|++.|.
T Consensus 167 ~~~~~~~C~~CG~i~~g~~p~~CP~C~~~k~ 197 (202)
T 1yuz_A 167 DDDKFHLCPICGYIHKGEDFEKCPICFRPKD 197 (202)
T ss_dssp CSCCEEECSSSCCEEESSCCSBCTTTCCBGG
T ss_pred CCCcEEEECCCCCEEcCcCCCCCCCCCCChH
Confidence 3467899999999999833334445666654
No 10
>1msc_A Bacteriophage MS2 coat protein; translation repressor, viral protein; 2.00A {Enterobacterio phage MS2} SCOP: d.85.1.1 PDB: 2bu1_A* 1u1y_A 1zdi_A 1zdj_A 1zdk_A 1zdh_A* 2c4q_A* 2c4y_A* 2c4z_A* 2c50_A 2c51_A 2iz8_A 2iz9_A* 2izm_A 2izn_A 2ms2_A 5msf_A 6msf_A 7msf_A 1aq3_A ...
Probab=11.28 E-value=49 Score=28.73 Aligned_cols=24 Identities=13% Similarity=0.411 Sum_probs=21.1
Q ss_pred HHcCCCCCCC-CcccccccccCCCC
Q 013320 415 MQAGAQVPEQ-YKPTMRLDIIVPES 438 (445)
Q Consensus 415 iQAGa~vP~~-y~~~mr~d~~~p~~ 438 (445)
+|.|+++|.. |++.|.+|..||-.
T Consensus 71 v~~gvelpvaa~rsy~~meltipif 95 (129)
T 1msc_A 71 TVGGVELPVAARRSYLNMELTIPIF 95 (129)
T ss_dssp SSSSCSSCSSTTCEEEEEEEEEETT
T ss_pred eeCcEEeehHHHHhhccceEeeeEE
Confidence 5789999988 99999999998854
Done!