Query psy4231
Match_columns 247
No_of_seqs 156 out of 661
Neff 7.3
Searched_HMMs 29240
Date Fri Aug 16 20:11:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4231.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/4231hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xov_A Rhomboid protease GLPG; 99.5 2.8E-14 9.5E-19 118.2 10.6 165 10-186 2-177 (181)
2 2nr9_A Protein GLPG homolog; i 99.3 1.3E-11 4.4E-16 103.3 10.2 166 9-187 6-183 (196)
3 2jpk_A Bacteriocin lactococcin 23.9 44 0.0015 19.0 1.8 17 151-167 2-18 (35)
4 1ss6_A P47, NSFL1 cofactor P47 12.3 49 0.0017 24.0 0.2 9 239-247 87-95 (102)
5 2l92_A Histone family protein 11.6 56 0.0019 20.6 0.3 9 235-243 13-22 (50)
6 1hnr_A H-NS; histone-like prot 10.6 95 0.0032 19.2 1.1 7 237-243 18-25 (47)
7 1jb0_J Photosystem 1 reaction 9.6 2E+02 0.0067 17.3 2.2 24 1-24 1-24 (41)
8 1w8x_P Protein P16, protein S, 8.9 2.6E+02 0.0088 19.6 2.9 23 120-142 9-31 (117)
9 2lev_A LER; transcription regu 8.2 86 0.003 20.3 0.2 9 235-243 23-32 (57)
10 1emz_A Envelope glycoprotein E 7.1 2.2E+02 0.0076 15.3 1.5 16 175-190 4-19 (26)
No 1
>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane protease; HET: BNG; 1.65A {Escherichia coli} PDB: 2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A* 3txt_A* 2xtv_A* 3b44_A*
Probab=99.54 E-value=2.8e-14 Score=118.20 Aligned_cols=165 Identities=14% Similarity=0.118 Sum_probs=111.2
Q ss_pred cCChHHHHHHHHHHHHHHHHhhCccc--ccceeeehHHHhhcccccccccceeecCCCCCccHHHHHHHHHHHHhhhhhh
Q psy4231 10 SQPFFTRWWLALTIAFTIGGRFGLLR--GSDLILIYDLFVNNFHIWRPITALFYYPLSPANGFHFLMNCYFLYSYSGLLE 87 (247)
Q Consensus 10 ~iPpvTR~~~~~~~~~sll~~~~~~~--p~~l~~~~~~v~~~~q~WRliT~~f~~g~~~~~~~~~l~~l~~l~~~~~~LE 87 (247)
+.||+|+.+++.++++.++....-.. ...+.++++. .++.|+||++|+.|.|+ ...|+++|++.++.+++.+|
T Consensus 2 ~~~pvt~~li~~~v~vf~~~~~~~~~~~~~~~~~~p~~-~~~~~~wrl~T~~f~H~----~~~Hl~~Nm~~l~~~g~~~E 76 (181)
T 2xov_A 2 RAGPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDP-TLKFEFWRYFTHALMHF----SLMHILFNLLWWWYLGGAVE 76 (181)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHSSCCSG-GGTTCTTHHHHGGGCCC----SHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHHHHHHHhCcHHHHHhhcCChhh-ccCCCCHHHHHHHHHcc----CHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999987653211 1234456654 45789999999999994 66999999999999999999
Q ss_pred cccCCCChhhHHHHHHHHHHHHHHHHHHhhhh-hhH-HHHHHHHH---HHHHhhCCCCeEEEEEEeecccccHHHHHHHH
Q psy4231 88 KGLFDGKPADYAFMLLFNWVCCVVIALLADIY-FLM-NPMVLSVM---YVWCQLNKDANVTFMFRTQFKAMYLPWVLFAC 162 (247)
Q Consensus 88 ~~~f~~~~~df~~~ll~~~~~i~l~~~~~~~~-~l~-~~l~~~l~---Y~ws~~np~~~v~~~g~~~i~a~ylP~~~l~~ 162 (247)
+.. .+.+|+.+.+.+++...+.+..++.+ ..+ ++.+++++ .+.++++|+.++. ++.+...+-.+.+++
T Consensus 77 ~~~---G~~~fl~~yl~~~i~~~l~~~~~~~~~~vGaSGai~gl~g~~~~~~~~~p~~~~~----l~~~~~~~~~~~~~~ 149 (181)
T 2xov_A 77 KRL---GSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIY----LQRGLIIFALIWIVA 149 (181)
T ss_dssp HHH---CHHHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHHCGGGSCC----CCHHHHHHHHHHHHH
T ss_pred HHh---ChHHHHHHHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHHHHhhCcCceee----eHHHHHHHHHHHHHH
Confidence 975 35678777666666665555554322 222 44443333 2346788887653 233332222222344
Q ss_pred HHHh----cchhhHHHHHHHHHHHHHHh
Q psy4231 163 NLIL----FGGGVMELIGILIGHLYFFL 186 (247)
Q Consensus 163 ~~l~----~~~~~~~l~Gi~~GhlY~fl 186 (247)
++.. +-+...|+.|+++|.++-.+
T Consensus 150 ~~~~~~~~~v~~~aHlgG~l~G~l~~~~ 177 (181)
T 2xov_A 150 GWFDLFGMSMANGAHIAGLAVGLAMAFV 177 (181)
T ss_dssp HHTTSSCCSSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHhccccchHHHHHHHHHHHHHHHHH
Confidence 4432 12468999999999998765
No 2
>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid protease, membrane protein; HET: PA6 PQE; 2.20A {Haemophilus influenzae} SCOP: f.51.1.1 PDB: 3odj_A
Probab=99.29 E-value=1.3e-11 Score=103.35 Aligned_cols=166 Identities=16% Similarity=0.212 Sum_probs=109.5
Q ss_pred hcCChHHHHHHHHHHHHHHHHhhCccc--ccceeeehHHHhhcccccccccceeecCCCCCccHHHHHHHHHHHHhhhhh
Q psy4231 9 NSQPFFTRWWLALTIAFTIGGRFGLLR--GSDLILIYDLFVNNFHIWRPITALFYYPLSPANGFHFLMNCYFLYSYSGLL 86 (247)
Q Consensus 9 ~~iPpvTR~~~~~~~~~sll~~~~~~~--p~~l~~~~~~v~~~~q~WRliT~~f~~g~~~~~~~~~l~~l~~l~~~~~~L 86 (247)
.+.||+|+.++++++++.++....-.. ...+.++++.+ ++.|+||++|+.|.|+ ...|+++|++.++..++.+
T Consensus 6 ~~~~pvt~~li~~~v~vfll~~~~~~~~~~~~~~~~p~~~-~~~~~wrl~T~~flH~----~~~Hl~~Nm~~l~~~G~~l 80 (196)
T 2nr9_A 6 AQQGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEE-QDSEVWRYISHTLVHL----SNLHILFNLSWFFIFGGMI 80 (196)
T ss_dssp TTSCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHSCCCSGG-GGGCTTHHHHGGGCCS----SHHHHHHHHHHHHHHHHHH
T ss_pred cccccHHHHHHHHHHHHHHHHHHcCcHHHHHhhcCCHhhc-ccCCcHHHHHHHHHcc----CHHHHHHHHHHHHHHHHHH
Confidence 467999999999999999887643111 12345666655 5789999999999994 6799999999999999999
Q ss_pred hcccCCCChhhHHHHHHHHHHHHHHHHHHhhh-hhh-HHHHHHHHHH---HHHhhCCCCeEEEEEEeecccccHHHHHHH
Q psy4231 87 EKGLFDGKPADYAFMLLFNWVCCVVIALLADI-YFL-MNPMVLSVMY---VWCQLNKDANVTFMFRTQFKAMYLPWVLFA 161 (247)
Q Consensus 87 E~~~f~~~~~df~~~ll~~~~~i~l~~~~~~~-~~l-~~~l~~~l~Y---~ws~~np~~~v~~~g~~~i~a~ylP~~~l~ 161 (247)
|+.. .+..|+.+.+.+++...+.+..+.. +.. .|+.+++++- +..+++|+. . .++.+...+-.+.++
T Consensus 81 E~~~---G~~~~l~~yl~~~~~~~l~~~~~~~~~~vGaSGai~gl~g~~~~~~~~~~~~-~----~~~~~~~~~~~~~~~ 152 (196)
T 2nr9_A 81 ERTF---GSVKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVLGYVFIRDKLNHHL-F----DLPEGFFTMLLVGIA 152 (196)
T ss_dssp HHHH---CHHHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHSSTTS-C----CCCCSSTTTTTTTTT
T ss_pred HHHH---ChHHHHHHHHHHHHHHHHHHHHhcCCCeeeHHHHHHHHHHHHHHHHHhcchh-h----cchHHHHHHHHHHHH
Confidence 9975 3566776666665555555544422 222 2444433331 234566665 1 134444433333344
Q ss_pred HHHHhc-----chhhHHHHHHHHHHHHHHhh
Q psy4231 162 CNLILF-----GGGVMELIGILIGHLYFFLT 187 (247)
Q Consensus 162 ~~~l~~-----~~~~~~l~Gi~~GhlY~fl~ 187 (247)
++++.. -+...|+.|+++|.++-++.
T Consensus 153 ~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~~ 183 (196)
T 2nr9_A 153 LGFISPLFGVEMGNAAHISGLIVGLIWGFID 183 (196)
T ss_dssp HHHHSCSSCCTTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhccCCCccHHHHHHHHHHHHHHHHHH
Confidence 555432 24689999999999887753
No 3
>2jpk_A Bacteriocin lactococcin-G subunit beta; peptide, antimicrobial, membrane bound, antimicrobial protein; NMR {Lactococcus lactis} PDB: 2jpm_A
Probab=23.93 E-value=44 Score=19.04 Aligned_cols=17 Identities=35% Similarity=0.311 Sum_probs=14.1
Q ss_pred ccccHHHHHHHHHHHhc
Q psy4231 151 KAMYLPWVLFACNLILF 167 (247)
Q Consensus 151 ~a~ylP~~~l~~~~l~~ 167 (247)
|.+||||+--+.+++.+
T Consensus 2 ~~~wl~w~~pay~fi~g 18 (35)
T 2jpk_A 2 KWGWLAWVDPAYEFIKG 18 (35)
T ss_dssp CCCHHHHHHHHHHHHHH
T ss_pred CcccccccchHHHHHHH
Confidence 56799999999888775
No 4
>1ss6_A P47, NSFL1 cofactor P47, P47 protein, P97; , SEP, signaling protein; NMR {Homo sapiens} SCOP: d.245.1.1
Probab=12.27 E-value=49 Score=23.96 Aligned_cols=9 Identities=44% Similarity=0.929 Sum_probs=7.9
Q ss_pred CCCCCCCCC
Q psy4231 239 GRGNVLGGS 247 (247)
Q Consensus 239 G~g~rLG~~ 247 (247)
|.|||||+.
T Consensus 87 G~G~~LGs~ 95 (102)
T 1ss6_A 87 GEGQKLGST 95 (102)
T ss_dssp SSSSSGGGC
T ss_pred ccCeECCCC
Confidence 999999963
No 5
>2l92_A Histone family protein nucleoid-structuring prote; H-NS, at HOOK, DNA binding protein; NMR {Burkholderia vietnamiensis}
Probab=11.63 E-value=56 Score=20.61 Aligned_cols=9 Identities=56% Similarity=1.542 Sum_probs=6.9
Q ss_pred CCCC-CCCCC
Q psy4231 235 GRSW-GRGNV 243 (247)
Q Consensus 235 g~~w-G~g~r 243 (247)
|..| |+|++
T Consensus 13 G~TWsGRGR~ 22 (50)
T 2l92_A 13 GKTWSGRGRQ 22 (50)
T ss_dssp CCEECSCSSC
T ss_pred CCeecCCCCC
Confidence 5688 88875
No 6
>1hnr_A H-NS; histone-like protein H1, DNA-binding protein; NMR {Escherichia coli} SCOP: a.155.1.1 PDB: 1hns_A
Probab=10.58 E-value=95 Score=19.17 Aligned_cols=7 Identities=43% Similarity=1.460 Sum_probs=5.7
Q ss_pred CC-CCCCC
Q psy4231 237 SW-GRGNV 243 (247)
Q Consensus 237 ~w-G~g~r 243 (247)
.| |+|++
T Consensus 18 TWtGrGr~ 25 (47)
T 1hnr_A 18 TWTGQGRT 25 (47)
T ss_dssp ECCTTSSC
T ss_pred cccCCCCC
Confidence 78 88876
No 7
>1jb0_J Photosystem 1 reaction centre subunit IX; membrane protein, multiprotein-pigment complex, photosynthes; HET: CL1 PQN BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP: f.23.18.1 PDB: 3pcq_J*
Probab=9.57 E-value=2e+02 Score=17.28 Aligned_cols=24 Identities=17% Similarity=0.605 Sum_probs=17.7
Q ss_pred CccHHHHHhcCChHHHHHHHHHHH
Q psy4231 1 MSDLSDWFNSQPFFTRWWLALTIA 24 (247)
Q Consensus 1 m~~~~~~~~~iPpvTR~~~~~~~~ 24 (247)
|+++..++...|.+.-.|+..+..
T Consensus 1 m~~f~kyLstAPVla~~w~~~tAg 24 (41)
T 1jb0_J 1 MKHFLTYLSTAPVLAAIWMTITAG 24 (41)
T ss_dssp CHHHHHHTTBHHHHHHHHHHHHHH
T ss_pred CchHHHHHhhhhHHHHHHHHHHHH
Confidence 778888888888777776665533
No 8
>1w8x_P Protein P16, protein S, GPS; virus, P3 major capsid protein, P30 TAPE measure, P31 penton protein, P16 membrane protein; 4.20A {Enterobacteria phage PRD1} SCOP: i.6.1.1
Probab=8.87 E-value=2.6e+02 Score=19.57 Aligned_cols=23 Identities=22% Similarity=0.538 Sum_probs=17.9
Q ss_pred hhHHHHHHHHHHHHHhhCCCCeE
Q psy4231 120 FLMNPMVLSVMYVWCQLNKDANV 142 (247)
Q Consensus 120 ~l~~~l~~~l~Y~ws~~np~~~v 142 (247)
..+.+++..+++.|-|..|..+|
T Consensus 9 wvggglvliliwlwfrnrpaaqv 31 (117)
T 1w8x_P 9 WVGGGLVLILIWLWFRNRPAAQV 31 (117)
T ss_dssp HHHHHHHHHHHHHHHHHTTCSCS
T ss_pred EecCchhhHHHHHHHccChHHHH
Confidence 34677788888999998887765
No 9
>2lev_A LER; transcription regulator-DNA complex, arginine-minor-groove recognition; HET: DNA; NMR {Escherichia coli}
Probab=8.20 E-value=86 Score=20.28 Aligned_cols=9 Identities=44% Similarity=1.250 Sum_probs=7.2
Q ss_pred CCCC-CCCCC
Q psy4231 235 GRSW-GRGNV 243 (247)
Q Consensus 235 g~~w-G~g~r 243 (247)
|..| |+|++
T Consensus 23 g~TWtGrGR~ 32 (57)
T 2lev_A 23 GQTWSGVGRQ 32 (57)
T ss_dssp CCEECSSSCC
T ss_pred CCeeCCCCCC
Confidence 6789 99976
No 10
>1emz_A Envelope glycoprotein E1; peptide, transmembrane domain, envelope protein E1, hepatitis C virus, viral protein; NMR {Synthetic} SCOP: j.35.1.1
Probab=7.07 E-value=2.2e+02 Score=15.30 Aligned_cols=16 Identities=31% Similarity=0.600 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHhhhcc
Q psy4231 175 IGILIGHLYFFLTFKY 190 (247)
Q Consensus 175 ~Gi~~GhlY~fl~~i~ 190 (247)
-|++.|+.|+...--|
T Consensus 4 wGvl~glayfsm~gnW 19 (26)
T 1emz_A 4 WGVLAGIAYFSMVGNW 19 (26)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chhhHHHHHHHHhhHH
Confidence 4788899998765433
Done!