Query psy6840
Match_columns 439
No_of_seqs 204 out of 1416
Neff 5.9
Searched_HMMs 29240
Date Fri Aug 16 19:46:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6840.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/6840hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3mg1_A OCP, orange carotenoid 44.8 21 0.00072 35.2 4.6 24 404-427 65-88 (323)
2 1fqj_C Retinal ROD rhodopsin-s 42.1 8.8 0.0003 26.3 1.0 17 362-378 1-17 (42)
3 2kog_A Vesicle-associated memb 39.1 21 0.00073 30.2 3.3 17 49-65 64-80 (119)
4 2oar_A Large-conductance mecha 38.6 1.5E+02 0.0051 26.7 8.9 75 349-433 58-148 (174)
5 3b9w_A Ammonium transporter fa 36.4 5.8 0.0002 40.6 -0.8 41 334-374 260-301 (407)
6 2l9b_A MRNA 3'-END-processing 30.1 70 0.0024 26.8 4.9 30 402-431 37-67 (109)
7 2bf9_A Pancreatic hormone; tur 29.6 29 0.00099 23.4 2.0 29 49-77 4-33 (36)
8 1f8p_A Neuropeptide Y (PNPY); 27.3 53 0.0018 22.3 3.0 30 49-78 4-34 (37)
9 1bba_A Bovine pancreatic polyp 26.8 28 0.00094 23.5 1.5 29 49-77 4-33 (36)
10 2ju4_A GMP-PDE gamma, retinal 25.4 28 0.00097 27.4 1.6 16 362-377 46-61 (87)
11 2zo4_A Metallo-beta-lactamase 24.4 1.1E+02 0.0037 28.6 5.9 85 348-435 210-305 (317)
12 3hnn_A Putative diflavin flavo 24.2 31 0.0011 31.9 2.0 36 342-378 201-236 (262)
13 4dik_A Flavoprotein; TM0755, e 22.9 30 0.001 34.9 1.8 37 340-377 208-244 (410)
14 4ad9_A Lactb2, beta-lactamase- 21.7 1.3E+02 0.0044 27.8 5.8 87 348-436 177-276 (289)
15 2b2h_A AMT-1, ammonium transpo 20.1 73 0.0025 32.3 3.9 36 334-373 270-305 (399)
No 1
>3mg1_A OCP, orange carotenoid protein; carotenoid binding protein, echinone, phycobilisome; HET: ECH; 1.65A {Synechocystis SP} PDB: 3mg2_A* 3mg3_A* 1m98_A*
Probab=44.77 E-value=21 Score=35.20 Aligned_cols=24 Identities=29% Similarity=0.360 Sum_probs=21.0
Q ss_pred HHHHHHHhCCChHHHHHHHHHHHH
Q psy6840 404 QGLLDNIYMLKPEQQLQLYYNLKQ 427 (439)
Q Consensus 404 ~~~~~~~~~l~~~~q~~l~~~l~~ 427 (439)
+.+++||++|++|||+++.+-|-+
T Consensus 65 e~ll~qik~ms~eeQlqvMrDL~~ 88 (323)
T 3mg1_A 65 ENALKEIQAMGPLQQTQAMCDLAN 88 (323)
T ss_dssp HHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHh
Confidence 679999999999999999876643
No 2
>1fqj_C Retinal ROD rhodopsin-sensitive CGMP 3',5'- cyclic phosphodiesterase gamma-subunit...; RGS9, transducin, effector, pdegamma, G protein; HET: GDP; 2.02A {Bos taurus} SCOP: j.51.1.1
Probab=42.05 E-value=8.8 Score=26.30 Aligned_cols=17 Identities=41% Similarity=0.698 Sum_probs=10.9
Q ss_pred CCccCCCCCCCCcchhh
Q psy6840 362 NIKDFSDIIPGHGGLID 378 (439)
Q Consensus 362 gVKDsG~lIPGHGGILD 378 (439)
|+|-||+-||||=|.--
T Consensus 1 gv~gf~~~ipGmeglgt 17 (42)
T 1fqj_C 1 GVQGFGDDIPGMEGLGT 17 (42)
T ss_dssp ----CTTCCSCCTTCCH
T ss_pred CCcccccccccccccCC
Confidence 68999999999977643
No 3
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus}
Probab=39.11 E-value=21 Score=30.16 Aligned_cols=17 Identities=6% Similarity=0.245 Sum_probs=8.3
Q ss_pred cccCCCCCCchhhhhhh
Q psy6840 49 KQIKQGTNKVPGFIAQY 65 (439)
Q Consensus 49 ~~~~~~~~~~~~~~~~~ 65 (439)
..+-+.++++.......
T Consensus 64 d~L~~KTe~L~~~S~~F 80 (119)
T 2kog_A 64 SELDDRADALQAGASQF 80 (119)
T ss_dssp CCCCSCCSCCCSSSHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455566655444433
No 4
>2oar_A Large-conductance mechanosensitive channel; stretch activated ION channel mechanosensitive, membrane protein; 3.50A {Mycobacterium tuberculosis H37RA} SCOP: f.16.1.1
Probab=38.56 E-value=1.5e+02 Score=26.71 Aligned_cols=75 Identities=13% Similarity=0.088 Sum_probs=43.6
Q ss_pred hhhHHHHHhhhhCCCccCCCCC----CCC-------cchhhhhhhhhhHHHHHHHHHHHHhccCCHHHHHHHHhCC----
Q psy6840 349 FGGFFASGFKRAFNIKDFSDII----PGH-------GGLIDRFDCQFLMSTFVYVYIYTFIYRNTIQGLLDNIYML---- 413 (439)
Q Consensus 349 fGDL~eS~~KR~~gVKDsG~lI----PGH-------GGILDRfDs~ll~a~~v~~yl~~fi~~~~~~~~~~~~~~l---- 413 (439)
..|++.-.+- .+|-+||.++. ++- |-++.-+=..++++.++|+.+...+++ +...
T Consensus 58 V~dIImPlIg-l~Gg~dfs~l~~~l~~~~~~~~i~yG~Fi~avInFlIIA~vIYFliVk~iNk---------lk~~~e~~ 127 (174)
T 2oar_A 58 TDSIITPLIN-RIGVNAQSDVGILRIGIGGGQTIDLNVLLSAAINFFLIAFAVYFLVVLPYNT---------LRKKGEVE 127 (174)
T ss_dssp HHHHHHHHHH-HHCCCCEEECCCCTTTCCSCEEECHHHHHHHHHHHHHHHHHHHHHTHHHHHH---------HHHTTCCC
T ss_pred HHHhHHHHHH-hhCCCCcccceEEEecCCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHhcCCCC
Confidence 3577776666 55778887652 322 445555555566666665554333321 1100
Q ss_pred -ChHHHHHHHHHHHHHHHhcc
Q psy6840 414 -KPEQQLQLYYNLKQDLIARD 433 (439)
Q Consensus 414 -~~~~q~~l~~~l~~~~~~~~ 433 (439)
.+.++.+|+..+++.|.+|+
T Consensus 128 ~~~~~e~~LL~EIRDlLk~~~ 148 (174)
T 2oar_A 128 QPGDTQVVLLTEIRDLLAQTN 148 (174)
T ss_dssp CHHHHHHHHHHHHHHHHHHTC
T ss_pred CCCCChHHHHHHHHHHHHhcc
Confidence 11245689999999999874
No 5
>3b9w_A Ammonium transporter family; membrane protein, ammonia transport, rhesus protein, transpo protein; HET: BOG; 1.30A {Nitrosomonas europaea} PDB: 3bhs_A 3b9y_A* 3b9z_A*
Probab=36.40 E-value=5.8 Score=40.63 Aligned_cols=41 Identities=20% Similarity=0.251 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHhhchhh-HHHHHhhhhCCCccCCCCCCCCc
Q psy6840 334 FHTIVISIFASLIGPFGG-FFASGFKRAFNIKDFSDIIPGHG 374 (439)
Q Consensus 334 ~~~l~l~l~~Svig~fGD-L~eS~~KR~~gVKDsG~lIPGHG 374 (439)
+.++++|++++++..+|- ++...+||.+||-|.=+.+|=||
T Consensus 260 ~~A~iIG~iaG~i~~~~~~~l~~~l~~~l~iDD~l~a~~vHg 301 (407)
T 3b9w_A 260 VGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHG 301 (407)
T ss_dssp HHHHHHHHHHHHHHHHHHHTHHHHHHHHSCCCCTTCHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCeecch
Confidence 678999999999998886 45667889999999999999994
No 6
>2l9b_A MRNA 3'-END-processing protein RNA15; 3' END mRNA maturation, transcription; NMR {Saccharomyces cerevisiae}
Probab=30.15 E-value=70 Score=26.76 Aligned_cols=30 Identities=17% Similarity=0.050 Sum_probs=24.5
Q ss_pred CHH-HHHHHHhCCChHHHHHHHHHHHHHHHh
Q psy6840 402 TIQ-GLLDNIYMLKPEQQLQLYYNLKQDLIA 431 (439)
Q Consensus 402 ~~~-~~~~~~~~l~~~~q~~l~~~l~~~~~~ 431 (439)
.++ .|-+.+-.|+|+|++++++++|+...+
T Consensus 37 ap~~~IS~~Laslpp~Ql~eiL~qmK~~~~~ 67 (109)
T 2l9b_A 37 TPAMMISSELAKKPKEVQLKFLQKFQEWTRA 67 (109)
T ss_dssp CHHHHHHHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Confidence 366 555677899999999999999987664
No 7
>2bf9_A Pancreatic hormone; turkey, pancreas, polypeptide, atomic resolution, anisotropic refinement; HET: TYC; 0.99A {Meleagris gallopavo} SCOP: j.6.1.1 PDB: 1ppt_A 2k76_A 2h3s_B* 2h3t_B* 2h4b_C*
Probab=29.62 E-value=29 Score=23.40 Aligned_cols=29 Identities=14% Similarity=0.253 Sum_probs=23.0
Q ss_pred cccCCCCCCchhhhhhhhc-hHhHHHHHHH
Q psy6840 49 KQIKQGTNKVPGFIAQYIQ-SEAYQNALIR 77 (439)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~-~~r~~nl~~R 77 (439)
|.-.+|.|..||.+.+..+ -..+-|+++|
T Consensus 4 kP~~PG~dA~~Eela~Y~~~LrhYiNlvTR 33 (36)
T 2bf9_A 4 QPTYPGDDAPVEDLIRFYNDLQQYLNVVTR 33 (36)
T ss_dssp CCCCCCTTSCHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 4456788999999998887 6777888876
No 8
>1f8p_A Neuropeptide Y (PNPY); helix; NMR {Synthetic} SCOP: j.6.1.1 PDB: 1ron_A 1fvn_A* 1icy_A 1tz4_A 2oon_A
Probab=27.33 E-value=53 Score=22.27 Aligned_cols=30 Identities=23% Similarity=0.298 Sum_probs=23.9
Q ss_pred cccCCCCCCchhhhhhhhc-hHhHHHHHHHH
Q psy6840 49 KQIKQGTNKVPGFIAQYIQ-SEAYQNALIRV 78 (439)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~-~~r~~nl~~R~ 78 (439)
|.-.+|.|..|+.+.+..+ -..+-|+++|=
T Consensus 4 kP~~Pg~~a~pEela~Y~~~Lr~YinlvTRq 34 (37)
T 1f8p_A 4 KPDNPGEDAPAEDLARYYSALRHYINLITRQ 34 (37)
T ss_dssp CCCCCCSSCTTTTHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhccc
Confidence 4445788899999999888 77788988883
No 9
>1bba_A Bovine pancreatic polypeptide; pancreatic hormone; NMR {Bos taurus} SCOP: j.6.1.1 PDB: 1ljv_A 1tz5_A 1v1d_A
Probab=26.83 E-value=28 Score=23.51 Aligned_cols=29 Identities=34% Similarity=0.454 Sum_probs=22.5
Q ss_pred cccCCCCCCchhhhhhhhc-hHhHHHHHHH
Q psy6840 49 KQIKQGTNKVPGFIAQYIQ-SEAYQNALIR 77 (439)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~-~~r~~nl~~R 77 (439)
|.-.+|.|..||.+.+..+ -..+-|+++|
T Consensus 4 kP~~PG~dA~pEela~Y~~~Lr~YiNlvTR 33 (36)
T 1bba_A 4 EPEYPGDNATPEQMAQYAAELRRYINMLTR 33 (36)
T ss_dssp CCCCCSSCSSTTHHHHHHHHHHHHHHHHCC
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhhc
Confidence 4445788999999998887 6677787766
No 10
>2ju4_A GMP-PDE gamma, retinal ROD rhodopsin-sensitive CGMP 3',5'-cyclic phosphodiesterase subunit gamma...; intrinsic disordered protein; HET: RCY; NMR {Bos taurus}
Probab=25.41 E-value=28 Score=27.38 Aligned_cols=16 Identities=31% Similarity=0.466 Sum_probs=13.0
Q ss_pred CCccCCCCCCCCcchh
Q psy6840 362 NIKDFSDIIPGHGGLI 377 (439)
Q Consensus 362 gVKDsG~lIPGHGGIL 377 (439)
|||-||+-||||-|+-
T Consensus 46 GvkGfgddipgmeglg 61 (87)
T 2ju4_A 46 GVQGCGDDIPGMEGCG 61 (87)
T ss_dssp SSSCCCCSSCSSSSCS
T ss_pred Cccccccccccccccc
Confidence 6888999999987764
No 11
>2zo4_A Metallo-beta-lactamase family protein; hydrolase; 2.10A {Thermus thermophilus}
Probab=24.40 E-value=1.1e+02 Score=28.58 Aligned_cols=85 Identities=16% Similarity=0.122 Sum_probs=40.0
Q ss_pred chhhHHHHHhhhhCCCccCCCCCCCCcchhhh----hhhhhhHHHHHHHHHHHHhc-cCCHHHHHHHHhC--CChHHHHH
Q psy6840 348 PFGGFFASGFKRAFNIKDFSDIIPGHGGLIDR----FDCQFLMSTFVYVYIYTFIY-RNTIQGLLDNIYM--LKPEQQLQ 420 (439)
Q Consensus 348 ~fGDL~eS~~KR~~gVKDsG~lIPGHGGILDR----fDs~ll~a~~v~~yl~~fi~-~~~~~~~~~~~~~--l~~~~q~~ 420 (439)
...+..+|. +|-.+. |.-.++||||+..+. ++..+-----..-.+...+. +.|+.++.+.++. +++.+..-
T Consensus 210 ~~~~~~~sl-~~l~~l-~~~~v~pgHg~~~~~~~~~i~~~~~~~~~~~~~i~~~l~~~~t~~ei~~~~~~~~~~~~~~~~ 287 (317)
T 2zo4_A 210 PLKDFLRSL-DRLADL-GARVAYAGHFGPIADVRQRAEELKAHHQARLEALLALLDGPKTAWELSLHLFPQELDPAGRRF 287 (317)
T ss_dssp HHHHHHHHH-HHHHTS-CCSEEEESSSSCBSCHHHHHHHHHHHHHHHHHHHHHHCSSCBCHHHHHHHHCC-------CHH
T ss_pred hHHHHHHHH-HHHhcC-CCCEEECCCCCccCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHhhcccChhHHHH
Confidence 345566653 555555 567899999988753 33321100000011111122 3578888888754 54433222
Q ss_pred ----HHHHHHHHHHhcccC
Q psy6840 421 ----LYYNLKQDLIARDIL 435 (439)
Q Consensus 421 ----l~~~l~~~~~~~~~~ 435 (439)
....|+ .|.++|.+
T Consensus 288 a~~e~~ahL~-~L~~~g~v 305 (317)
T 2zo4_A 288 AFAETLAHLE-YLREEGAV 305 (317)
T ss_dssp HHHHHHHHHH-HHHHTTSE
T ss_pred HHHHHHHHHH-HHHHCCCE
Confidence 222232 56666654
No 12
>3hnn_A Putative diflavin flavoprotein A 5; PSI-2, protein structure initiative, northeast structural GE consortium, NESG, NSR435A, DFA5, electron transport; 1.80A {Nostoc SP} PDB: 4fek_A
Probab=24.15 E-value=31 Score=31.87 Aligned_cols=36 Identities=19% Similarity=0.409 Sum_probs=27.0
Q ss_pred HHHHhhchhhHHHHHhhhhCCCccCCCCCCCCcchhh
Q psy6840 342 FASLIGPFGGFFASGFKRAFNIKDFSDIIPGHGGLID 378 (439)
Q Consensus 342 ~~Svig~fGDL~eS~~KR~~gVKDsG~lIPGHGGILD 378 (439)
...+.++...-...+++|-... |.-.++||||.+.+
T Consensus 201 ~~~~~~~~~~~~~~sl~~l~~L-~~~~i~PgHG~~~~ 236 (262)
T 3hnn_A 201 FNCLMAPHAIHVEAALEKISDL-QVRLYAVGHGPLVR 236 (262)
T ss_dssp HHHHTGGGHHHHHHHHHHHTTS-CCSEEEESSSSEES
T ss_pred HHHHhhhhHHHHHHHHHHHhCC-CCCEEECCCCcccc
Confidence 3445666666667778887776 56899999999985
No 13
>4dik_A Flavoprotein; TM0755, electron transport, DI-iron protein; 1.75A {Thermotoga maritima} PDB: 4dil_A 1vme_A*
Probab=22.89 E-value=30 Score=34.94 Aligned_cols=37 Identities=19% Similarity=0.550 Sum_probs=32.0
Q ss_pred HHHHHHhhchhhHHHHHhhhhCCCccCCCCCCCCcchh
Q psy6840 340 SIFASLIGPFGGFFASGFKRAFNIKDFSDIIPGHGGLI 377 (439)
Q Consensus 340 ~l~~Svig~fGDL~eS~~KR~~gVKDsG~lIPGHGGIL 377 (439)
--+..+++|++..+..++||-.+. |--.+.||||-+.
T Consensus 208 ~yy~~i~~p~~~~v~~~L~kl~~L-di~~I~P~HGpi~ 244 (410)
T 4dik_A 208 KYIVTVIGHYKNYILEGAEKLSSL-KIKALLPGHGLIW 244 (410)
T ss_dssp HHHHHHHGGGHHHHHHHHHHHHTS-CCSEEEESSSCBB
T ss_pred HHHHhhccchHHHHHHHHHHHhCC-CCCEEecCCcchh
Confidence 346778999999999999998777 6778999999887
No 14
>4ad9_A Lactb2, beta-lactamase-like protein 2; hydrolase, metallo-beta lactamase, mitochondria; 2.60A {Homo sapiens}
Probab=21.66 E-value=1.3e+02 Score=27.77 Aligned_cols=87 Identities=22% Similarity=0.196 Sum_probs=41.3
Q ss_pred chhhHHHHHhhhhCCCccCCCCCCCCcchhh----hhhhhhhHHHHHHHHHHHHhc-----cCCHHHHHHHHh-CCChHH
Q psy6840 348 PFGGFFASGFKRAFNIKDFSDIIPGHGGLID----RFDCQFLMSTFVYVYIYTFIY-----RNTIQGLLDNIY-MLKPEQ 417 (439)
Q Consensus 348 ~fGDL~eS~~KR~~gVKDsG~lIPGHGGILD----RfDs~ll~a~~v~~yl~~fi~-----~~~~~~~~~~~~-~l~~~~ 417 (439)
...+..+|. +|-...++ ..++||||+..+ |++..+=-----+-.+...+. +.++.++.+.++ .+++..
T Consensus 177 ~~~~~~~sl-~~l~~l~~-~~v~pgHg~~~~~~~~~i~~~~~~~~~r~~~i~~~l~~~~~~~~t~~ei~~~~~~~~p~~l 254 (289)
T 4ad9_A 177 DLYDYMNSL-KELLKIKA-DIIYPGHGPVIHNAEAKIQQYISHRNIREQQILTLFRENFEKSFTVMELVKIIYKNTPENL 254 (289)
T ss_dssp CHHHHHHHH-HHHHHHTC-SEEEESSSSCBSCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCBCHHHHHHHHTTTSCGGG
T ss_pred CHHHHHHHH-HHHHcCCC-CEEEeCCCChhcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCHHH
Confidence 344444543 44333322 389999998764 344322111111112222232 347788888775 455443
Q ss_pred HHHHHHHHHH---HHHhcccCc
Q psy6840 418 QLQLYYNLKQ---DLIARDILQ 436 (439)
Q Consensus 418 q~~l~~~l~~---~~~~~~~~~ 436 (439)
..--...... .|.++|.+.
T Consensus 255 ~~~a~~~~~ahL~~L~~~g~v~ 276 (289)
T 4ad9_A 255 HEMAKHNLLLHLKKLEKEGKIF 276 (289)
T ss_dssp HHHHHHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHHHHHHCCcEE
Confidence 3222222222 566677553
No 15
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein; 1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Probab=20.09 E-value=73 Score=32.33 Aligned_cols=36 Identities=22% Similarity=0.223 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhhchhhHHHHHhhhhCCCccCCCCCCCC
Q psy6840 334 FHTIVISIFASLIGPFGGFFASGFKRAFNIKDFSDIIPGH 373 (439)
Q Consensus 334 ~~~l~l~l~~Svig~fGDL~eS~~KR~~gVKDsG~lIPGH 373 (439)
+.++++|++++++..++- .+|+.+|+-|.=+.+|=|
T Consensus 270 ~~A~iiG~iag~i~~~~~----~l~~kl~iDD~l~a~~vH 305 (399)
T 2b2h_A 270 KGAIVIGLVAGIVCYLAM----DFRIKKKIDESLDAWAIH 305 (399)
T ss_dssp HHHHHHHHHHHHHHHHHH----HHHHHTTCCCTTCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHcCCCCCCCceecc
Confidence 678999999999998876 688999999998888888
Done!