Query psy5305
Match_columns 947
No_of_seqs 246 out of 614
Neff 6.4
Searched_HMMs 29240
Date Fri Aug 16 23:10:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5305.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5305hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3arc_I Photosystem II reaction 70.4 5.8 0.0002 29.3 4.2 31 544-574 2-32 (38)
2 2kwh_A RAla-binding protein 1; 18.1 75 0.0026 25.6 2.7 24 877-900 2-25 (56)
3 1pi7_A VPU protein, U ORF prot 14.1 1.6E+02 0.0054 21.7 3.3 22 375-396 13-34 (36)
4 3j1r_A Archaeal adhesion filam 11.4 2.7E+02 0.0093 18.9 3.5 20 458-477 3-22 (26)
5 1ews_A RK-1 defensin, alpha-de 7.2 1.2E+02 0.0039 21.0 0.4 15 347-361 5-20 (32)
6 3ixz_A Potassium-transporting 6.2 1E+03 0.035 29.7 8.8 58 690-748 791-855 (1034)
7 4fqn_A Malcavernin; helical do 6.1 1E+02 0.0034 27.7 -0.4 59 691-759 35-93 (98)
8 3bej_E Nuclear receptor coacti 5.9 3.2E+02 0.011 18.4 1.9 16 204-219 7-22 (26)
9 2bai_A Genome polyprotein; zin 5.2 94 0.0032 21.9 -0.9 20 330-349 5-24 (32)
10 1afo_A Glycophorin A; integral 4.9 5E+02 0.017 19.4 2.7 18 459-476 11-28 (40)
No 1
>3arc_I Photosystem II reaction center protein I; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_I* 2axt_I* 3bz1_I* 3bz2_I* 3kzi_I* 3prq_I* 3prr_I* 3a0b_I* 3a0h_I*
Probab=70.45 E-value=5.8 Score=29.30 Aligned_cols=31 Identities=26% Similarity=0.560 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhhhhhHHHHHHhhcccccCCC
Q psy5305 544 LAIKIYLFQFVNYYTSIFYIAFLKGKFIGYP 574 (947)
Q Consensus 544 li~K~FlF~FvN~y~sLFYiAF~~~~f~g~p 574 (947)
+|+|+|+..-|..|.|||.-+|...+-.-.|
T Consensus 2 ltLKi~Vy~vV~ffvsLFiFGfLsnDP~RNP 32 (38)
T 3arc_I 2 ETLKITVYIVVTFFVLLFVFGFLSGDPARNP 32 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTGGGCSS
T ss_pred eeEEeeehhHHHHHHHHHHccccCCCCCCCC
Confidence 6899999999999999999999887643333
No 2
>2kwh_A RAla-binding protein 1; GTPase activation, transport protein; NMR {Homo sapiens} PDB: 2kwi_B*
Probab=18.11 E-value=75 Score=25.62 Aligned_cols=24 Identities=25% Similarity=0.536 Sum_probs=20.9
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHH
Q psy5305 877 PDIPSELKDQIKREEYLTSELIIK 900 (947)
Q Consensus 877 pdvP~~v~~~~~re~yl~~~~l~~ 900 (947)
||.|+++..+++|++++..+.-.+
T Consensus 2 p~~~e~I~~El~kQe~lL~~LH~e 25 (56)
T 2kwh_A 2 SETQAGIKEEIRRQEFLLNSLHRD 25 (56)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999998876543
No 3
>1pi7_A VPU protein, U ORF protein; alpha helix, viral protein; NMR {Human immunodeficiency virus 1} SCOP: j.35.1.1 PDB: 1pi8_A 1pje_A 2gof_A 2goh_A 2jpx_A
Probab=14.11 E-value=1.6e+02 Score=21.74 Aligned_cols=22 Identities=14% Similarity=0.448 Sum_probs=17.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHh
Q psy5305 375 VIFAFLMSIWAVLFLESWKRYS 396 (947)
Q Consensus 375 ~~faif~~lWat~FlE~WKRr~ 396 (947)
+.+-+-+++|..+|.|+.|-+.
T Consensus 13 valIiaIVVWtiv~ieYrk~~k 34 (36)
T 1pi7_A 13 VAIIIAIVVWSIVIIEGRGGKK 34 (36)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4556678899999999998764
No 4
>3j1r_A Archaeal adhesion filament core; helical polymer, flagellar filament, cell adhesion, structur protein; 7.50A {Ignicoccus hospitalis}
Probab=11.40 E-value=2.7e+02 Score=18.90 Aligned_cols=20 Identities=30% Similarity=0.589 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy5305 458 SVVLILIMCALATVVGVVLY 477 (947)
Q Consensus 458 ~ivl~~i~lvi~~v~~v~v~ 477 (947)
|++...++++++..-++.+|
T Consensus 3 piVA~~lLIviav~aaVlly 22 (26)
T 3j1r_A 3 PVIATLLLILIAVAAAVLLY 22 (26)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 44444344444444444444
No 5
>1ews_A RK-1 defensin, alpha-defisin; alpha defensin, triple-stranded beta-sheet, antimicrobial protein; NMR {Oryctolagus cuniculus} SCOP: g.9.1.1
Probab=7.21 E-value=1.2e+02 Score=20.97 Aligned_cols=15 Identities=40% Similarity=1.285 Sum_probs=11.9
Q ss_pred ccCCCCcccccc-ccc
Q psy5305 347 CDRTCDYWKLSD-TCK 361 (947)
Q Consensus 347 c~~~c~~w~l~~-~c~ 361 (947)
|.+.|+.|+.-| +|.
T Consensus 5 ckkycdpwevidgscg 20 (32)
T 1ews_A 5 CKKYCDPWEVIDGSCG 20 (32)
T ss_dssp EESSCCTTEEEEECCS
T ss_pred cccccChhheeccccc
Confidence 778999999875 675
No 6
>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase, P-type ATPase, membrane protein, hydrolase, aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 2yn9_A 2xzb_A 1iwc_A 1iwf_A
Probab=6.20 E-value=1e+03 Score=29.74 Aligned_cols=58 Identities=10% Similarity=0.099 Sum_probs=34.9
Q ss_pred hhHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHhhhhHHHHHhh------c-cCCCcccccccc
Q psy5305 690 YPEYLEMVLQYGFVVLFVSAFPLAPLFALINNIFETRLDAQKFLKY------Y-RRPVPHRATNIG 748 (947)
Q Consensus 690 f~DYlEmvIQFGyvtLFsaafPLAPl~ALlNNiiEiR~Da~Kl~~~------~-RRP~p~ra~~IG 748 (947)
.....|++++|.++ +|+...||.|+--|..|++--=.=+.-|... + |+|.+.+.+.|=
T Consensus 791 ~~ni~~~~~~~~~~-~~~~~~pl~~~qiL~inl~~d~~palal~~e~~~~~~m~~~Pr~~~~~~l~ 855 (1034)
T 3ixz_A 791 TKNIPELTPYLIYI-TVSVPLPLGCITILFIELCTDIFPSVSLAYEKAESDIMHLRPRNPKRDRLV 855 (1034)
T ss_pred HHHHHHHHHHHHHH-HHhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCChhhhhCCCCCCcccccc
Confidence 34555666776665 3455678999988888887654445555532 3 445444345443
No 7
>4fqn_A Malcavernin; helical domain, harmonin-homology domain, protein-protein interaction, HOMO-dimer, protein binding; 1.90A {Homo sapiens}
Probab=6.06 E-value=1e+02 Score=27.67 Aligned_cols=59 Identities=15% Similarity=0.218 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHhhhhHHHHHhhccCCCcccccccccHHHHHHHHHH
Q psy5305 691 PEYLEMVLQYGFVVLFVSAFPLAPLFALINNIFETRLDAQKFLKYYRRPVPHRATNIGIWFRVLDVVAK 759 (947)
Q Consensus 691 ~DYlEmvIQFGyvtLFsaafPLAPl~ALlNNiiEiR~Da~Kl~~~~RRP~p~ra~~IG~W~~iLe~l~~ 759 (947)
.+|..++-+|=- .-|+. -+.+.++|+-.|--|++-..=||+ .+.+|||.....||.+++
T Consensus 35 qqFA~Llr~YR~------G~~I~---~Fc~kLl~LyG~~Rk~LL~gmRpF-Ip~~Di~~FesFle~igi 93 (98)
T 4fqn_A 35 QQFAALLHEYRN------GASIH---EFCINLRQLYGDSRKFLLLGLRPF-IPEKDSQHFENFLETIGV 93 (98)
T ss_dssp HHHHHHHHHHHT------TCCHH---HHHHHHHHHHCGGGGGGGGGGGGG-SCHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHHHc------CCCHH---HHHHHHHHHhchHHHHHHhhccCC-CChhhHHHHHHHHHHcCc
Confidence 556666666632 22444 456789999999999999888998 677799999999998763
No 8
>3bej_E Nuclear receptor coactivator 1; FXR, BAR, NR1H4, bIle acid receptor, NHR, alternative splicing, DNA-binding, metal-binding nucleus, repressor; HET: MUF; 1.90A {Homo sapiens} PDB: 1fm9_B* 1k74_B* 1fm6_B* 1p8d_C* 1rdt_B* 1nrl_C* 3ipq_B* 3ips_C* 3ipu_C* 4dm6_E* 4dm8_C* 3kmg_B* 2hfp_B* 1k7l_B*
Probab=5.90 E-value=3.2e+02 Score=18.41 Aligned_cols=16 Identities=25% Similarity=0.272 Sum_probs=13.4
Q ss_pred CHHHHHHHHHHHHhcC
Q psy5305 204 SPPSRSLIIDFILSRQ 219 (947)
Q Consensus 204 t~aeR~rIv~~iL~~~ 219 (947)
|-.||++|++.+|++-
T Consensus 7 sL~EkHkILHrLLQ~~ 22 (26)
T 3bej_E 7 SLTERHKILHRLLQEG 22 (26)
T ss_pred hHHHHHHHHHHHHHcC
Confidence 4589999999999853
No 9
>2bai_A Genome polyprotein; zinc finger domain, viruses, cardiovirus, structural genomics, PSI, protein structure initiative; NMR {Mengo virus} SCOP: g.87.1.1
Probab=5.21 E-value=94 Score=21.91 Aligned_cols=20 Identities=25% Similarity=0.875 Sum_probs=13.9
Q ss_pred chhhhccCCCceeeccCccC
Q psy5305 330 LSRDICNKTLNIIMCPLCDR 349 (947)
Q Consensus 330 ~~~eiC~~~~~~~mcP~c~~ 349 (947)
..+|+|.-+-.+-.||+|..
T Consensus 5 ~~~~aCkHgyp~~~CP~CtA 24 (32)
T 2bai_A 5 MEQEICAHSMTFEECPKCSA 24 (32)
T ss_dssp CCSCCCSSSSCGGGHHHHHC
T ss_pred HHHHHHhcCCCcccccccce
Confidence 34788986535567998863
No 10
>1afo_A Glycophorin A; integral membrane protein, transmembrane helix interactions, membrane protein folding; NMR {Homo sapiens} SCOP: j.35.1.1 PDB: 2kpf_A
Probab=4.89 E-value=5e+02 Score=19.45 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy5305 459 VVLILIMCALATVVGVVL 476 (947)
Q Consensus 459 ivl~~i~lvi~~v~~v~v 476 (947)
++.+.+..+++.++|.++
T Consensus 11 ~i~lII~~vmaGiIG~Il 28 (40)
T 1afo_A 11 EITLIIFGVMAGVIGTIL 28 (40)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 334444455555555544
Done!