RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6972
(133 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 = 113 bits (286), Expect = 7e-32
Identities = 20/107 (18%), Positives = 46/107 (42%), Gaps = 2/107 (1%)
Query: 1 NYSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFT 60
+S + V + R+ ++Y + +P +++ +S+ FWLE + R+ T ML
Sbjct: 187 EFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLE--SFSERLQTSFTLMLTVVA 244
Query: 61 TSNGFRSTLPVVSNLTAMNVWDGVCMCFIYASLLEFVCVNYVGRKRP 107
+ + LP + T ++ I+A++L + ++
Sbjct: 245 YAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGV 291
>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 = 112 bits (282), Expect = 4e-31
Identities = 45/110 (40%), Positives = 66/110 (60%)
Query: 1 NYSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFT 60
YSCL+ + R+ +FY ++IP +LV S+++FW + A+PARV +GVTT+L
Sbjct: 199 IYSCLRTTIQLKREFSFYLLQLYIPSCMLVIVSWVSFWFDRTAIPARVTLGVTTLLTMTA 258
Query: 61 TSNGFRSTLPVVSNLTAMNVWDGVCMCFIYASLLEFVCVNYVGRKRPLHN 110
S G S LP VS + A++VW G CM FI+ +LLEF VN++
Sbjct: 259 QSAGINSQLPPVSYIKAIDVWIGACMTFIFCALLEFALVNHIANAGTTEW 308
>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 = 93.1 bits (232), Expect = 5e-24
Identities = 19/106 (17%), Positives = 42/106 (39%), Gaps = 2/106 (1%)
Query: 1 NYSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFT 60
S L L +R Y + +P + ++ S+ FW + A V + V+T++
Sbjct: 184 LESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWST--SYEANVTLVVSTLIAHIA 241
Query: 61 TSNGFRSTLPVVSNLTAMNVWDGVCMCFIYASLLEFVCVNYVGRKR 106
+ + LP +T + F + +++E +Y+ +
Sbjct: 242 FNILVETCLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVES 287
>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 = 77.6 bits (191), Expect = 3e-20
Identities = 30/69 (43%), Positives = 51/69 (73%)
Query: 44 VPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLTAMNVWDGVCMCFIYASLLEFVCVNYVG 103
+PARV +G+TT+L T S+G R++LP VS + A+++W VC+ F++++LLE+ VN+V
Sbjct: 1 LPARVGLGITTVLTLTTQSSGSRASLPKVSYVKAIDIWLAVCLLFVFSALLEYAAVNFVS 60
Query: 104 RKRPLHNVV 112
RK+ H ++
Sbjct: 61 RKKKKHRLL 69
>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 = 41.0 bits (96), Expect = 3e-05
Identities = 18/114 (15%), Positives = 38/114 (33%), Gaps = 2/114 (1%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
+ + LI R FY + P +++ + + ++L A + + ++ +L
Sbjct: 198 FQEIIFFLIIQRKPLFYIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIF 257
Query: 62 SNGFRSTLPVVSNLTA-MNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNVVY 113
+P S + + M + V V N R H+ V
Sbjct: 258 LFLIAQKVPETSLNVPLIGKYLIFVMFVSLVIVTNCVIVLNVSLRTPNTHSCVE 311
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 39.7 bits (92), Expect = 9e-05
Identities = 17/112 (15%), Positives = 38/112 (33%), Gaps = 2/112 (1%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
+ + LI R FY + P +++ + + ++L A + + ++ +L
Sbjct: 205 FQEIIFFLIIQRKPLFYIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIF 264
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
+P S + + M + V V N R H++
Sbjct: 265 LFLIAQKVPETSLNVPLIGKYLIFVMFVSLVIVTNCVIVLNVSLRTPNTHSL 316
>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 = 39.1 bits (91), Expect = 1e-04
Identities = 19/114 (16%), Positives = 46/114 (40%), Gaps = 3/114 (2%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
Y + I R ++ V IP ++ + + F+L ++ ++ + ++ +L+
Sbjct: 198 YLDITYHFIMQRIPLYFVVNVIIPCLLFSFLTVLVFYLPTDS-GEKMTLSISVLLSLTVF 256
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNVVY 113
+P S+ + + M F+ +S++ V V N R H+ +
Sbjct: 257 LLVIVELIPSTSSAVPLIGKYMLFTMIFVISSIIVTVVVINTHHRSPSTHSAIE 310
>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 = 36.4 bits (84), Expect = 0.001
Identities = 19/108 (17%), Positives = 42/108 (38%), Gaps = 2/108 (1%)
Query: 1 NYSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFT 60
+Y + LI R FY +P I++ + + F+L +A ++ + ++ +L
Sbjct: 194 SYEDVTFYLIIQRKPLFYIVYTIVPCILISILAILVFYLPPDA-GEKMSLSISALLALTV 252
Query: 61 TSNGFRSTLPVVSNLTAMNVW-DGVCMCFIYASLLEFVCVNYVGRKRP 107
+P S + + M + S++ V V + + P
Sbjct: 253 FLLLLADKVPETSLSVPIIISYLMFIMILVAFSVILSVVVLNLHHRSP 300
>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 = 36.4 bits (84), Expect = 0.001
Identities = 17/112 (15%), Positives = 36/112 (32%), Gaps = 3/112 (2%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
Y + LI R FY P +++ + + F+L + ++ + +L
Sbjct: 197 YQDVTFYLIIRRKPLFYVINFITPCVLISFLAALAFYLPAES-GEKMSTAICVLLAQAVF 255
Query: 62 SNGFRSTLPVVSNLTAMNVW-DGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
LP + + M + ++ V N+ R H+
Sbjct: 256 LLLTSQRLPETALAVPLIGKYLMFIMSLVTGVVVNCGIVLNFHFRTPSTHSG 307
>1mot_A Glycine receptor alpha-1 chain; second transmembrane domain,
micelles, membrane protein; NMR {Homo sapiens} SCOP:
j.35.1.1
Length = 28
Score = 32.7 bits (74), Expect = 0.002
Identities = 14/26 (53%), Positives = 20/26 (76%)
Query: 45 PARVMIGVTTMLNFFTTSNGFRSTLP 70
PARV +G+TT+L T S+G R++LP
Sbjct: 2 PARVGLGITTVLTMTTQSSGSRASLP 27
>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 = 33.7 bits (76), Expect = 0.010
Identities = 14/97 (14%), Positives = 34/97 (35%), Gaps = 2/97 (2%)
Query: 17 FYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLT 76
FY + P +++ + + ++L A + + ++ +L +P S
Sbjct: 3 FYIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIFLFLIAQKVPETSLNV 62
Query: 77 -AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
+ + M ++ V V N R H++
Sbjct: 63 PLIGKYLIFVMFVSMLIVMNCVIVLNVSLRTPNTHSL 99
>4aq5_B Acetylcholine receptor beta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_B
Length = 493
Score = 33.2 bits (75), Expect = 0.020
Identities = 19/107 (17%), Positives = 41/107 (38%), Gaps = 2/107 (1%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
Y + LI R FY +P I++ + + F+L +A ++ + ++ +L
Sbjct: 228 YEDVTFYLIIQRKPLFYIVYTIVPCILISILAILVFYLPPDA-GEKMSLSISALLALTVF 286
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCVNYVGRKRP 107
+P S + + M + S++ V V + + P
Sbjct: 287 LLLLADKVPETSLSVPIIISYLMFIMILVAFSVILSVVVLNLHHRSP 333
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 32.8 bits (74), Expect = 0.022
Identities = 17/112 (15%), Positives = 37/112 (33%), Gaps = 3/112 (2%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
Y + LI R FY P +++ + + F+L + ++ + +L
Sbjct: 233 YQDVTFYLIIRRKPLFYVINFITPCVLISFLAALAFYLPAES-GEKMSTAICVLLAQAVF 291
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
LP + + + M + ++ V N+ R H +
Sbjct: 292 LLLTSQRLPETALAVPLIGKYLMFIMSLVTGVVVNCGIVLNFHFRTPSTHVL 343
>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 = 31.7 bits (72), Expect = 0.031
Identities = 18/107 (16%), Positives = 40/107 (37%), Gaps = 2/107 (1%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
L R FY + IP +++ + + + F+L + ++ + ++ +L
Sbjct: 15 TENLYFQSNARRKPLFYTINLIIPCVLITSLAILVFYLPSDC-GEKMTLCISVLLALTVF 73
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCVNYVGRKRP 107
+P S + + M + S++ VCV V + P
Sbjct: 74 LLLISKIVPPTSLDVPLVGKYLMFTMVLVTFSIVTSVCVLNVHHRSP 120
>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 = 31.3 bits (70), Expect = 0.069
Identities = 16/97 (16%), Positives = 41/97 (42%), Gaps = 3/97 (3%)
Query: 17 FYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLT 76
++ V IP ++ + + F+L ++ ++ + ++ +L+ +P S+
Sbjct: 3 YFVVNVIIPCLLFSFLTGLVFYLPTDS-GEKMTLSISVLLSLTVFLLVIVELIPSTSSAV 61
Query: 77 -AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
+ + M F+ +S++ V V N R H +
Sbjct: 62 PLIGKYMLFTMIFVISSIIITVVVINTHHRSPSTHTM 98
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR
{Torpedo marmorata} PDB: 2lkh_A
Length = 140
Score = 30.6 bits (69), Expect = 0.076
Identities = 9/84 (10%), Positives = 28/84 (33%), Gaps = 2/84 (2%)
Query: 17 FYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLT 76
++ V P + + F+L ++ ++ + + + +P S+
Sbjct: 51 YFVVNVIEPCKKFSELTGLVFYLPTDS-GEKMTESKSVLKSLTEKLKKIVELIPSTSSAV 109
Query: 77 -AMNVWDGVCMCFIYASLLEFVCV 99
+ + F+ +S+ V
Sbjct: 110 PLIGKYMLFTKEFVESSIKITEEV 133
>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 = 30.2 bits (67), Expect = 0.13
Identities = 13/97 (13%), Positives = 33/97 (34%), Gaps = 3/97 (3%)
Query: 17 FYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLT 76
FY P +++ + + F+L + ++ ++ +L LP +
Sbjct: 3 FYVINFITPCVLISFLASLAFYLPAES-GEKMSTAISVLLAQAVFLLLTSQRLPETALAV 61
Query: 77 -AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
+ + M + ++ V N+ R H +
Sbjct: 62 PLIGKYLMFIMSLVTGVIVNCGIVLNFHFRTPSTHVL 98
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_A
Length = 461
Score = 30.4 bits (68), Expect = 0.16
Identities = 17/107 (15%), Positives = 43/107 (40%), Gaps = 2/107 (1%)
Query: 2 YSCLKVDLIFTRDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTT 61
Y + I R ++ V IP ++ + + F+L ++ ++ + ++ +L+
Sbjct: 222 YLDITYHFIMQRIPLYFVVNVIIPCLLFSFLTVLVFYLPTDS-GEKMTLSISVLLSLTVF 280
Query: 62 SNGFRSTLPVVSNLT-AMNVWDGVCMCFIYASLLEFVCVNYVGRKRP 107
+P S+ + + M F+ +S++ V V + P
Sbjct: 281 LLVIVELIPSTSSAVPLIGKYMLFTMIFVISSIIVTVVVINTHHRSP 327
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane
domain, transport PROT; NMR {Homo sapiens}
Length = 137
Score = 29.4 bits (66), Expect = 0.20
Identities = 17/101 (16%), Positives = 41/101 (40%), Gaps = 3/101 (2%)
Query: 13 RDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVV 72
FY + IP +++ + + F+L ++ + ++ +L+ +P
Sbjct: 5 ELPLFYTINLIIPCLLISCLTVLVFYLPSEC-GEKITLCISVLLSLTVFLLLITEIIPST 63
Query: 73 SNLT-AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
S+++ ++ + M F+ S++ V V N R H
Sbjct: 64 SSVSPSIGEYLLFTMIFVTLSIVITVFVLNVHHRSPETHTG 104
>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 = 30.0 bits (67), Expect = 0.21
Identities = 23/137 (16%), Positives = 42/137 (30%), Gaps = 47/137 (34%)
Query: 13 RDRAFYFTTVFIPGIILVTSSFITFWLEWNAVPARVMI-------GVT---TMLNF--FT 60
+R F+ F+P V S F + L PA +I V+ + +
Sbjct: 410 SERKLKFSNRFLP----VASPFHSHLLV----PASDLINKDLVKNNVSFNAKDIQIPVYD 461
Query: 61 TSNG--FRS-----TLPVVSNLTAMNV-WDGVCMCFIYASLLEFVCVNYVGRKRPLHNVV 112
T +G R + +V + + V W+ + + H +
Sbjct: 462 TFDGSDLRVLSGSISERIVDCIIRLPVKWETTT------------------QFKATHILD 503
Query: 113 YRPGENP-VTQTFQRNT 128
+ PG + RN
Sbjct: 504 FGPGGASGLGVLTHRNK 520
>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 = 29.5 bits (65), Expect = 0.28
Identities = 18/97 (18%), Positives = 37/97 (38%), Gaps = 3/97 (3%)
Query: 17 FYFTTVFIPGIILVTSSFITFWLEWNAVPARVMIGVTTMLNFFTTSNGFRSTLPVVSNLT 76
FY IP I++ + + F+L +A ++ + ++ +L +P S
Sbjct: 3 FYIVYTIIPCILISILAILVFYLPPDA-GEKMSLSISALLAVTVFLLLLADKVPETSLSV 61
Query: 77 -AMNVWDGVCMCFIYASLLEFVCV-NYVGRKRPLHNV 111
+ + M + S++ V V N R H +
Sbjct: 62 PIIIRYLMFIMILVAFSVILSVVVLNLHHRSPNTHTM 98
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
0.330 0.140 0.455
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: 2,017,818
Number of extensions: 102837
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 208
Number of HSP's successfully gapped: 26
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 52 (24.3 bits)