RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10144
(88 letters)
>3rqw_A ELIC pentameric ligand gated ION channel from ERW chrysanthemi;
membrane, transport protein; HET: ACH MES; 2.91A
{Dickeya dadantii} PDB: 3rqu_A* 3uq4_A 3uq5_A 3uq7_A
2vl0_A 2yks_A
Length = 322
Score = 74.3 bits (183), Expect = 1e-17
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 14 YLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANI 59
LP LI+ SW FW+ +S R T +L V + + +NI
Sbjct: 209 ILPLGLIIAASWSVFWL--ESFSERLQTSFTLMLTVVAYAFYTSNI 252
>3rhw_A Avermectin-sensitive glutamate-gated chloride CHA alpha; membrane
protein, transport protein, Cys-loop receptor, LIGA ION
channel, neurotransmitter receptor; HET: NAG IVM LMT
UND; 3.26A {Caenorhabditis elegans} PDB: 3ri5_A* 3ria_A*
3rif_A*
Length = 347
Score = 74.5 bits (183), Expect = 1e-17
Identities = 24/46 (52%), Positives = 36/46 (78%)
Query: 14 YLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANI 59
Y+P+ ++VI+SWVSFW D ++P R TLGVTTLL +++QS+G +
Sbjct: 221 YIPSCMLVIVSWVSFWFDRTAIPARVTLGVTTLLTMTAQSAGINSQ 266
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane protein,
transport protei; HET: LMT; 2.60A {Gloeobacter
violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A*
3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A*
3eam_A* 3ehz_A 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A 2xqa_A
...
Length = 321
Score = 73.1 bits (180), Expect = 3e-17
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 14 YLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANI 59
LP + I+ ISW +FW S TL V+TL+A + +
Sbjct: 206 ILPMLFILFISWTAFWS--TSYEANVTLVVSTLIAHIAFNILVETC 249
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain,
third transmembrane domain, membrane protein; NMR {Homo
sapiens} SCOP: j.35.1.1
Length = 76
Score = 36.8 bits (85), Expect = 6e-05
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 35 VPGRTTLGVTTLLAVSSQSSG 55
+P R LG+TT+L +++QSSG
Sbjct: 1 LPARVGLGITTVLTLTTQSSG 21
>1oed_E Acetylcholine receptor protein, gamma chain; ION
channel/receptor, ION channel, tubular crystal,
transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1
Length = 260
Score = 38.0 bits (87), Expect = 9e-05
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI + + +++ + + TL ++ LLA +
Sbjct: 10 APCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQT 45
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_A
Length = 461
Score = 37.7 bits (87), Expect = 1e-04
Identities = 9/36 (25%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P +L ++ + F++ DS + TL ++ LL+++
Sbjct: 244 IPCLLFSFLTVLVFYLPTDS-GEKMTLSISVLLSLT 278
>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 36.8 bits (85), Expect = 3e-04
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI + + +++ + + TL ++ LLA +
Sbjct: 220 APCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQT 255
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR
{Torpedo marmorata} PDB: 2lkh_A
Length = 140
Score = 36.0 bits (83), Expect = 3e-04
Identities = 6/36 (16%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P ++ + F++ DS + T + L +++
Sbjct: 58 EPCKKFSELTGLVFYLPTDS-GEKMTESKSVLKSLT 92
>1oed_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, tubular crystal, transmembrane; 4.0A
{Torpedo marmorata} SCOP: f.36.1.1 PDB: 2k58_B
Length = 250
Score = 36.4 bits (83), Expect = 3e-04
Identities = 12/36 (33%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P ILI I++ + F++ D+ + +L ++ LLAV+
Sbjct: 10 IPCILISILAILVFYLPPDA-GEKMSLSISALLAVT 44
>1oed_A Acetylcholine receptor protein, alpha chain; ION
channel/receptor, ION channel, tubular crystal,
transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1
PDB: 1dxz_A 3mra_A 2k59_B
Length = 227
Score = 35.9 bits (82), Expect = 5e-04
Identities = 9/36 (25%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P +L ++ + F++ DS + TL ++ LL+++
Sbjct: 10 IPCLLFSFLTGLVFYLPTDS-GEKMTLSISVLLSLT 44
>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 36.0 bits (83), Expect = 5e-04
Identities = 9/36 (25%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P +L ++ + F++ DS + TL ++ LL+++
Sbjct: 220 IPCLLFSFLTVLVFYLPTDS-GEKMTLSISVLLSLT 254
>1oed_C Acetylcholine receptor protein, delta chain; ION
channel/receptor, ION channel, tubular crystal,
transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1
PDB: 1a11_A 1cek_A 1eq8_A
Length = 260
Score = 35.6 bits (81), Expect = 6e-04
Identities = 8/36 (22%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI ++ ++F++ +S + + ++ LLA +
Sbjct: 10 TPCVLISFLASLAFYLPAES-GEKMSTAISVLLAQA 44
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 35.5 bits (81), Expect = 0.001
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI + + +++ + + TL ++ LLA +
Sbjct: 227 APCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQT 262
>2ksr_A Neuronal acetylcholine receptor subunit beta-2; nicotinic
acetylcholine receptors, transmembrane domain, HFI
junction, cell membrane; NMR {Homo sapiens} PDB: 2lm2_A
Length = 164
Score = 34.4 bits (79), Expect = 0.002
Identities = 10/36 (27%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P +LI ++ + F++ D + TL ++ LLA++
Sbjct: 37 IPCVLITSLAILVFYLPSDC-GEKMTLCISVLLALT 71
>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 369
Score = 34.5 bits (79), Expect = 0.002
Identities = 8/36 (22%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI ++ ++F++ +S + + + LLA +
Sbjct: 219 TPCVLISFLAALAFYLPAES-GEKMSTAICVLLAQA 253
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane
domain, transport PROT; NMR {Homo sapiens}
Length = 137
Score = 34.0 bits (78), Expect = 0.002
Identities = 8/36 (22%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P +LI ++ + F++ + + TL ++ LL+++
Sbjct: 16 IPCLLISCLTVLVFYLPSEC-GEKITLCISVLLSLT 50
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 34.1 bits (78), Expect = 0.002
Identities = 11/36 (30%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P ILI I++ + F++ D+ + +L ++ LLA++
Sbjct: 217 VPCILISILAILVFYLPPDA-GEKMSLSISALLALT 251
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 32.4 bits (73), Expect = 0.009
Identities = 8/36 (22%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
P +LI ++ ++F++ +S + + + LLA +
Sbjct: 255 TPCVLISFLAALAFYLPAES-GEKMSTAICVLLAQA 289
>4aq5_B Acetylcholine receptor beta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_B
Length = 493
Score = 31.3 bits (70), Expect = 0.029
Identities = 11/36 (30%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 15 LPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVS 50
+P ILI I++ + F++ D+ + +L ++ LLA++
Sbjct: 250 VPCILISILAILVFYLPPDA-GEKMSLSISALLALT 284
>1mot_A Glycine receptor alpha-1 chain; second transmembrane domain,
micelles, membrane protein; NMR {Homo sapiens} SCOP:
j.35.1.1
Length = 28
Score = 25.0 bits (54), Expect = 0.91
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 36 PGRTTLGVTTLLAVSSQSSG 55
P R LG+TT+L +++QSSG
Sbjct: 2 PARVGLGITTVLTMTTQSSG 21
>3o0a_A Leucyl-tRNA synthetase subunit alpha; CP1 hydrolytic DOM ligase,
aminoacyl-tRNA synthetase, ATP-binding, nucleotide-
protein biosynthesis; 1.77A {Aquifex aeolicus} PDB:
3pz0_A 3pz5_A
Length = 219
Score = 25.3 bits (56), Expect = 2.3
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 47 LAVSSQSSGYANIASQTEPTTQIERKGERERTRDKEK 83
LA + G A + ++++ RERT +++K
Sbjct: 68 LACIGERLGNACYSDVENFVEKMKKMSTRERTMEEDK 104
>3hb3_B Cytochrome C oxidase subunit 2; electron transfer, proton transfer,
proton pumping, membrane protein, cell inner membrane,
cell membrane, copper; HET: HEA LDA LMT; 2.25A
{Paracoccus denitrificans} PDB: 1ar1_B* 3ehb_B* 1qle_B*
Length = 298
Score = 24.7 bits (54), Expect = 4.6
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 21 VIISWV--SFWMDVDSVPGR 38
VI +W +F + D+VPGR
Sbjct: 208 VIHAWTIPAFAVKQDAVPGR 227
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 24.7 bits (53), Expect = 4.9
Identities = 1/19 (5%), Positives = 9/19 (47%), Gaps = 1/19 (5%)
Query: 68 QIERKGERERTRDKEKQKE 86
+++ + +++ +E
Sbjct: 97 RLQELDAASK-VMEQEWRE 114
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 24.6 bits (53), Expect = 5.0
Identities = 11/43 (25%), Positives = 14/43 (32%), Gaps = 10/43 (23%)
Query: 38 RTTLGV-TTLLAVSSQ---------SSGYANIASQTEPTTQIE 70
L V T ++SQ A+ EPTT E
Sbjct: 17 EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
>3org_A CMCLC; transporter, transport protein; 3.50A {Cyanidioschyzon
merolae}
Length = 632
Score = 24.3 bits (53), Expect = 7.6
Identities = 5/22 (22%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 8 LTGRLSY-LPTILIVIIS-WVS 27
+TG++ + +P ++ V+++ V
Sbjct: 401 VTGQIRHLVPVLISVLLAVIVG 422
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.129 0.366
Gapped
Lambda K H
0.267 0.0513 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,220,891
Number of extensions: 54558
Number of successful extensions: 92
Number of sequences better than 10.0: 1
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 29
Length of query: 88
Length of database: 6,701,793
Length adjustment: 56
Effective length of query: 32
Effective length of database: 5,138,217
Effective search space: 164422944
Effective search space used: 164422944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.9 bits)