Query psy13178
Match_columns 163
No_of_seqs 131 out of 485
Neff 5.8
Searched_HMMs 29240
Date Fri Aug 16 22:08:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13178.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/13178hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2nov_A DNA topoisomerase 4 sub 14.8 55 0.0019 29.2 1.3 20 111-130 72-92 (496)
2 3ilw_A DNA gyrase subunit A; D 13.2 56 0.0019 29.0 0.9 20 112-131 54-74 (470)
3 2inr_A DNA topoisomerase 4 sub 12.7 61 0.0021 29.1 0.9 20 111-130 96-116 (514)
4 1zvu_A Topoisomerase IV subuni 12.5 64 0.0022 30.2 1.0 19 112-130 48-67 (716)
5 2xkj_E Topoisomerase IV; type 10.4 71 0.0024 30.1 0.6 19 112-130 342-361 (767)
6 3lpx_A GYRA, DNA gyrase, A sub 10.2 89 0.0031 28.0 1.1 19 112-130 47-66 (500)
7 2xcs_B DNA gyrase subunit B, D 9.9 74 0.0025 29.6 0.5 20 111-130 278-298 (692)
8 1wh2_A Hypothetical protein AT 8.8 73 0.0025 21.2 0.0 36 60-99 19-54 (78)
9 1skh_A Major prion protein 2; 8.6 2.2E+02 0.0077 15.7 2.0 20 50-71 7-26 (30)
10 2vec_A YHAK, pirin-like protei 8.5 68 0.0023 25.8 -0.3 49 65-116 27-83 (256)
No 1
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV, GRAM-positive bacteria, quinolone target, DNA binding, DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae} PDB: 3foe_A* 3fof_A* 3k9f_A* 3ksa_A* 3ksb_A* 3ltn_A* 3rad_A* 3rae_A* 3raf_A*
Probab=14.76 E-value=55 Score=29.22 Aligned_cols=20 Identities=30% Similarity=0.307 Sum_probs=14.6
Q ss_pred EecCccccch-hhhhhhccCc
Q psy13178 111 CVYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 111 g~hPHGil~~-Ga~~~f~t~~ 130 (163)
.|||||=-|. .|.+..+.+.
T Consensus 72 kYHPHGD~SiydaiVrMAQdf 92 (496)
T 2nov_A 72 NFHPHGDSSIYDAMVRMSQNW 92 (496)
T ss_dssp HTCCSCSTTTHHHHHHTTCTT
T ss_pred cCCCccHHHHHHHHHHHhhhh
Confidence 3999998775 5777776653
No 2
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic resistance, breakage-reunion domain, struct genomics; HET: DNA; 1.60A {Mycobacterium tuberculosis} SCOP: e.11.1.0 PDB: 3ifz_A*
Probab=13.20 E-value=56 Score=29.00 Aligned_cols=20 Identities=25% Similarity=0.285 Sum_probs=15.1
Q ss_pred ecCccccch-hhhhhhccCcc
Q psy13178 112 VYPHGILSS-GAFCNFASNAT 131 (163)
Q Consensus 112 ~hPHGil~~-Ga~~~f~t~~~ 131 (163)
|||||=-|. .+.+..+.+.+
T Consensus 54 YHPHGD~SiydaiVrmAQ~f~ 74 (470)
T 3ilw_A 54 YHPHGDASIYDSLVRMAQPWS 74 (470)
T ss_dssp TCCCCSTHHHHHHHHHHCTTT
T ss_pred hCCCcHHHHHHHHHHHhhHhh
Confidence 999998876 57777777643
No 3
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA; 2.80A {Staphylococcus aureus}
Probab=12.67 E-value=61 Score=29.11 Aligned_cols=20 Identities=25% Similarity=0.255 Sum_probs=11.8
Q ss_pred EecCccccch-hhhhhhccCc
Q psy13178 111 CVYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 111 g~hPHGil~~-Ga~~~f~t~~ 130 (163)
.|||||=-|. .|.+..+.+.
T Consensus 96 kYHPHGD~SiydaiVrMAQdf 116 (514)
T 2inr_A 96 QYHPHGDSSVYEAMVRLSQDW 116 (514)
T ss_dssp HTCC---CHHHHHHHHTTCTT
T ss_pred cCCCccHHHHHHHHHHHhhhh
Confidence 3999998875 5777776653
No 4
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA bindi topology; 3.00A {Escherichia coli}
Probab=12.46 E-value=64 Score=30.18 Aligned_cols=19 Identities=26% Similarity=0.237 Sum_probs=14.6
Q ss_pred ecCccccch-hhhhhhccCc
Q psy13178 112 VYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 112 ~hPHGil~~-Ga~~~f~t~~ 130 (163)
|||||=-|. .+.+..+.+.
T Consensus 48 YHPHGD~SiydaiVrmAQ~f 67 (716)
T 1zvu_A 48 YHPHGDSACYEAMVLMAQPF 67 (716)
T ss_dssp TSCTTCHHHHHHHHHHTSTT
T ss_pred cCCccHHHHHHHHHHHhhcc
Confidence 899998875 6777776653
No 5
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A*
Probab=10.42 E-value=71 Score=30.11 Aligned_cols=19 Identities=26% Similarity=0.237 Sum_probs=14.5
Q ss_pred ecCccccch-hhhhhhccCc
Q psy13178 112 VYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 112 ~hPHGil~~-Ga~~~f~t~~ 130 (163)
|||||=-|. .+.+..+.+.
T Consensus 342 YHPHGD~SiydaiVrmAQ~f 361 (767)
T 2xkj_E 342 YHPHGDSACYEAMVLMAQPF 361 (767)
T ss_dssp TCCSCHHHHHHHHHHHHCTT
T ss_pred cCCCchhHHHHHHHHHhhhh
Confidence 999998875 5777776653
No 6
>3lpx_A GYRA, DNA gyrase, A subunit; topoisomraseii, ATP-binding, isomerase, nucleo binding; HET: DNA; 2.60A {Colwellia psychrerythraea} SCOP: e.11.1.1 PDB: 2wl2_A* 2y3p_A* 3nuh_A* 1ab4_A
Probab=10.18 E-value=89 Score=27.98 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=14.5
Q ss_pred ecCccccch-hhhhhhccCc
Q psy13178 112 VYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 112 ~hPHGil~~-Ga~~~f~t~~ 130 (163)
|||||=-|. .+.+..+.+.
T Consensus 47 YHPHGD~SiydaiVrMAQdF 66 (500)
T 3lpx_A 47 YHPHGDTAVYDTIVRMAQPF 66 (500)
T ss_dssp TCCCCSSHHHHHHHHTTCTT
T ss_pred cCCCcHHHHHHHHHHHhhhh
Confidence 999999886 5677776653
No 7
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A*
Probab=9.87 E-value=74 Score=29.61 Aligned_cols=20 Identities=30% Similarity=0.272 Sum_probs=14.8
Q ss_pred EecCccccch-hhhhhhccCc
Q psy13178 111 CVYPHGILSS-GAFCNFASNA 130 (163)
Q Consensus 111 g~hPHGil~~-Ga~~~f~t~~ 130 (163)
.|||||=-|. .+.+..+.+.
T Consensus 278 kYHPHGD~SiydaiVrmAQ~f 298 (692)
T 2xcs_B 278 KYHPHGDSSIYEAMVRMAQDF 298 (692)
T ss_dssp HTCCSCHHHHHHHHHHHHCTT
T ss_pred ccCCccHHHHHHHHHHHhhcc
Confidence 3999998875 5777776653
No 8
>1wh2_A Hypothetical protein AT5G08430; GYF domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Arabidopsis thaliana} SCOP: d.76.1.1
Probab=8.83 E-value=73 Score=21.18 Aligned_cols=36 Identities=17% Similarity=0.377 Sum_probs=23.1
Q ss_pred HHheeeCCCCCCCCccccccchhHHHHHHHhHcCceeEEc
Q psy13178 60 IWIFVDRNTCETGGRRSEWMRDWAWWRYYRDYFPVRLVKT 99 (163)
Q Consensus 60 ~w~~~d~~~p~~ggr~~~w~r~~~iw~~~~~YFPi~Lvkt 99 (163)
.|.|.|..-..+|.-...=+++| +-.+||+-.|..-
T Consensus 19 ~W~Y~Dp~g~iQGPFs~~~M~~W----~~~GyF~~~L~Vr 54 (78)
T 1wh2_A 19 NWLYKDPQGLVQGPFSLTQLKAW----SDAEYFTKQFRVW 54 (78)
T ss_dssp CEEEECTTSCEEEEECHHHHHHH----HTTTSSCSCCEEE
T ss_pred eEEEECCCCCCcCCcCHHHHHHH----HHcCCCCCCceEE
Confidence 57788876666776555444443 2268999887543
No 9
>1skh_A Major prion protein 2; coil-helix-coil, unknown function; NMR {Bos taurus}
Probab=8.64 E-value=2.2e+02 Score=15.71 Aligned_cols=20 Identities=25% Similarity=0.609 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHheeeCCCCCC
Q psy13178 50 RWYPLILLYYIWIFVDRNTCET 71 (163)
Q Consensus 50 ~~w~l~~lY~~w~~~d~~~p~~ 71 (163)
.+|.++++-+.|- |-+.+.+
T Consensus 7 ~cwilvLfva~ws--dvglcKK 26 (30)
T 1skh_A 7 GSWILVLFVAMWS--DVGLCKK 26 (30)
T ss_dssp TTHHHHHHHHHHH--HHTTSSS
T ss_pred cHHHHHHHHHHHh--HHHHhhc
Confidence 5677777777773 4444444
No 10
>2vec_A YHAK, pirin-like protein YHAK; ROS, bicupin, sulfenic acid, reactive cysteine, cytosolic protein; 1.85A {Escherichia coli}
Probab=8.50 E-value=68 Score=25.80 Aligned_cols=49 Identities=16% Similarity=0.321 Sum_probs=30.5
Q ss_pred eCCCCCCCCccccccchhHHHHHHHhHcC--------ceeEEccCCCCCCceeEEecCcc
Q psy13178 65 DRNTCETGGRRSEWMRDWAWWRYYRDYFP--------VRLVKTTDLPSTKNYLFCVYPHG 116 (163)
Q Consensus 65 d~~~p~~ggr~~~w~r~~~iw~~~~~YFP--------i~Lvkt~~Ldp~knYifg~hPHG 116 (163)
-++.+++|.....|++....|-. .+||. .+++.+..++|.. =|+-|||-
T Consensus 27 ~r~~~~rg~~~~gwl~~~~~fsf-~~~~dP~~~~fg~l~vln~~~~~pg~--gf~~HPHr 83 (256)
T 2vec_A 27 TRTARQCGQADYGWLQARYTFSF-GHYFDPKLLGYASLRVLNQEVLAPGA--AFQPRTYP 83 (256)
T ss_dssp ---CCCCSSSCTTGGGCCEEEEC-CCCCBTTBCSCCCEEEEEEEEECTTC--EEEEECCS
T ss_pred EEcHHHCCCcccCCEEEEEeccC-ccccCHhHhcCCceEeccccccCCCC--ccCCcCCC
Confidence 35667777777788777666543 45652 3445666677765 47999994
Done!