RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5812
(365 letters)
>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 = 394 bits (1014), Expect = e-138
Identities = 61/297 (20%), Positives = 122/297 (41%), Gaps = 9/297 (3%)
Query: 55 HGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSEDE 113
D+ P +PL V + + S+ + + + + +L+ WKD RLAF
Sbjct: 4 AAQDMVSPPPPIADEPLTVNTGIYLIESYSLDDCAETFKVNAFLSLSWKDRRLAFDPVRS 63
Query: 114 VLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTTTLACMMD 173
+ + E IW+P+ F N +N+ DV + ++ DG++ Y RF+ + +D
Sbjct: 64 GVRVKTYEPEAIWIPEIRFVNVENARDADVV----DISVSPDGTVQYLERFSARVLSPLD 119
Query: 174 LHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHETNDRKEKLA 233
YP D+Q + + ++V+ V ++ L + I + A
Sbjct: 120 FRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFA 179
Query: 234 TGT--YQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVL 291
+L ++ R ++ LP + I+ +SW +FW + A V L ++T++
Sbjct: 180 LEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWS--TSYEANVTLVVSTLI 237
Query: 292 TMTTISTGVRSSLPRISYVKAIDIYLVMCFVFVFAALLEYAAVNYSYWADRAKKKPK 348
+ V + LP+ Y+ + M ++F F A++E +Y + +
Sbjct: 238 AHIAFNILVETCLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAAS 294
>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 = 392 bits (1008), Expect = e-136
Identities = 107/290 (36%), Positives = 172/290 (59%), Gaps = 6/290 (2%)
Query: 53 LLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSE 111
GYD R+RP G P+ V +++ + + I V+M+Y+ + L + W D RL++ +
Sbjct: 10 FTSGYDFRVRPPTDNGGPVVVSVNMLLRTISKIDVVNMEYSAQLTLRESWIDKRLSYGVK 69
Query: 112 D--EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTTTLA 169
+ + +IW+PDTFF N+K ++ H + + N L+R++ DG++ Y +R + L+
Sbjct: 70 GDGQPDFVILTVGHQIWMPDTFFPNEKQAYKHTIDKPNVLIRIHNDGTVLYSVRISLVLS 129
Query: 170 CMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETP---VRGVEEAQLPQFTILGHETN 226
C M L YYP+D Q C++++ SY YT D+ WKE ++ + LP F + T
Sbjct: 130 CPMYLQYYPMDVQQCSIDLASYAYTTKDIEYLWKEHSPLQLKVGLSSSLPSFQLTNTSTT 189
Query: 227 DRKEKLATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALG 286
TG Y L + +L+R +++ Q Y+PS ++V++SWVSFW + A ARV LG
Sbjct: 190 YCTSVTNTGIYSCLRTTIQLKREFSFYLLQLYIPSCMLVIVSWVSFWFDRTAIPARVTLG 249
Query: 287 ITTVLTMTTISTGVRSSLPRISYVKAIDIYLVMCFVFVFAALLEYAAVNY 336
+TT+LTMT S G+ S LP +SY+KAID+++ C F+F ALLE+A VN+
Sbjct: 250 VTTLLTMTAQSAGINSQLPPVSYIKAIDVWIGACMTFIFCALLEFALVNH 299
>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 = 383 bits (985), Expect = e-133
Identities = 61/315 (19%), Positives = 119/315 (37%), Gaps = 21/315 (6%)
Query: 66 GGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSEDEV----LTLSGDF 121
P+ V + + I ++ + Y + Y+ W + + +
Sbjct: 8 DARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWI 67
Query: 122 AEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTTTLACMMDLHYYPLDN 181
+WVP F N NK + L DG + Y RF + + MD +P D
Sbjct: 68 NNGLWVPALEFINVV----GSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDR 123
Query: 182 QNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHETNDRKE---------KL 232
Q +E+E + Y + + ++ ++ ++ I G + + +
Sbjct: 124 QQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQP 183
Query: 233 ATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLT 292
+ R+++ RN Y+++ LP LI+ SW FW+ E+ S R+ T +LT
Sbjct: 184 NQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWL--ESFSERLQTSFTLMLT 241
Query: 293 MTTISTGVRSSLPRISYVKAIDIYLVMCFVFVFAALLEYAAVNYSYW--ADRAKKKPKAK 350
+ + + LPR+ Y ID ++ + +FAA+L ++ + + +
Sbjct: 242 VVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCR 301
Query: 351 EPTPLGNYIRLCIFS 365
PLG C+
Sbjct: 302 LAFPLGFLAIGCVLV 316
>3igq_A GLR4197 protein; plgic Cys-loop, membrane protein, transport
protein; 2.30A {Gloeobacter violaceus}
Length = 201
Score = 261 bits (669), Expect = 2e-87
Identities = 38/201 (18%), Positives = 77/201 (38%), Gaps = 6/201 (2%)
Query: 58 DIRLRPNFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSEDEVLTL 117
+ P +PL V + + S+ + + + + +L+ WKD RLAF + +
Sbjct: 4 MVSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRV 63
Query: 118 SGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTTTLACMMDLHYY 177
E IW+P+ F N +N+ DV + ++ DG++ Y RF+ + +D
Sbjct: 64 KTYEPEAIWIPEIRFVNVENARDADVV----DISVSPDGTVQYLERFSARVLSPLDGRRT 119
Query: 178 PLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHETNDRKEKLATG-- 235
D+Q + + ++V+ V ++ L + I + A
Sbjct: 120 ESDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDR 179
Query: 236 TYQRLSLSFKLQRNIGYFVFQ 256
+L ++ R G+
Sbjct: 180 LESKLDYQLRISRQGGHHHHH 200
>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 = 122 bits (307), Expect = 7e-32
Identities = 55/289 (19%), Positives = 121/289 (41%), Gaps = 15/289 (5%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
++ LL Y+ +RP + + + L + ++ EV+ + L Q W D RL +
Sbjct: 8 VANLLENYNKVIRPVEHHTHFVDITVGLQLIQLINVDEVNQIVETNVRLRQQWIDVRLRW 67
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
+ D + + L ++ +W+PD N+ + V + L+ G I +
Sbjct: 68 NPADYGGIKKIRLP---SDDVWLPDLVLYNNADGDFAIVHMTK--LLLDYTGKIMWTPPA 122
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHE 224
C + + ++P D QNCT+++ + Y V + + + ++ + +
Sbjct: 123 IFKSYCEIIVTHFPFDQQNCTMKLGIWTYDGTKVSISPESDRPDLSTFMESGEWVMKDYR 182
Query: 225 TNDRKEK---LATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSA 281
Y ++ F +QR YFV +P +L L+ + F++ ++
Sbjct: 183 GWKHWVYYTCCPDTPYLDITYHFIMQRIPLYFVVNVIIPCLLFSFLTVLVFYLPTDSG-E 241
Query: 282 RVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALL 329
++ L I+ +L++T + +P S V I Y++ +FV ++++
Sbjct: 242 KMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLFTMIFVISSII 290
>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 = 119 bits (301), Expect = 5e-31
Identities = 64/296 (21%), Positives = 134/296 (45%), Gaps = 22/296 (7%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
+S L Y+ ++RP GD + V + LT+ S ++E + + T +++LN W D RL +
Sbjct: 8 LSVLFENYNPKVRPSQTVGDKVTVRVGLTLTSLLILNEKNEEMTTSVFLNLAWTDYRLQW 67
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
+ L++ ++ +W PD N+ + N V + G++++
Sbjct: 68 DPAAYEGIKDLSIP---SDDVWQPDIVLMNNNDGSFEITLHVN--VLVQHTGAVSWHPSA 122
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFT----- 219
+C + + Y+P D QNCT+ +SY Y +V++ FT
Sbjct: 123 IYRSSCTIKVMYFPFDWQNCTMVFKSYTYDTSEVILQHALD-----AMINQDAFTENGQW 177
Query: 220 ILGHETNDRKEKLATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEAT 279
+ H+ + + + +Y+ ++ +QR +++ T +P ILI +L+ + F++ +
Sbjct: 178 SIEHKPSRKNWRSDDPSYEDVTFYLIIQRKPLFYIVYTIVPCILISILAILVFYLPPD-A 236
Query: 280 SARVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALLEYAAV 334
+++L I+ +L +T + +P S V I YL+ + V +++ V
Sbjct: 237 GEKMSLSISALLALTVFLLLLADKVPETSLSVPIIISYLMFIMILVAFSVILSVVV 292
>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 = 119 bits (299), Expect = 9e-31
Identities = 60/302 (19%), Positives = 117/302 (38%), Gaps = 20/302 (6%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
I +LL YD R++P + V + LT+ + S++E T +++ W D RL++
Sbjct: 7 IEKLLGDYDKRIKPAKTLDHVIDVTLKLTLTNLISLNEKEEALTTNVWIEIQWNDYRLSW 66
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
++ + +++ + +E +W+PD N+ + N V + DGS+ +
Sbjct: 67 NTSEYEGIDLVRIP---SELLWLPDVVLENNVDGQFEVAYYAN--VLVYNDGSMYWLPPA 121
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVE------EAQLPQF 218
C + + Y+P D QNC++ S Y +V + E E +
Sbjct: 122 IYRSTCPIAVTYFPFDWQNCSLVFRSQTYNAHEVNLQLSAEEGIDPEDFTENGEWTIRHR 181
Query: 219 TILGHETNDRKEKLATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEA 278
+ +Q + +QR +++ P +LI L + +++ +A
Sbjct: 182 PAKKNYNWQ--LTKDDIDFQEIIFFLIIQRKPLFYIINIIAPCVLISSLVVLVYFLPAQA 239
Query: 279 TSARVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALLEYAAV-NY 336
+ L I+ +L T + +P S V I YL+ + V N
Sbjct: 240 GGQKCTLSISVLLAQTIFLFLIAQKVPETSLNVPLIGKYLIFVMFVSLVIVTNCVIVLNV 299
Query: 337 SY 338
S
Sbjct: 300 SL 301
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_A
Length = 461
Score = 118 bits (297), Expect = 5e-30
Identities = 59/309 (19%), Positives = 126/309 (40%), Gaps = 16/309 (5%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
++ LL Y+ +RP + + + L + ++ EV+ + L Q W D RL +
Sbjct: 32 VANLLENYNKVIRPVEHHTHFVDITVGLQLIQLINVDEVNQIVETNVRLRQQWIDVRLRW 91
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
+ D + + L D +W+PD N+ + V + L+ G I +
Sbjct: 92 NPADYGGIKKIRLPSD---DVWLPDLVLYNNADGDFAIVHMTK--LLLDYTGKIMWTPPA 146
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHE 224
C + + ++P D QNCT+++ + Y V + + + ++ + +
Sbjct: 147 IFKSYCEIIVTHFPFDQQNCTMKLGIWTYDGTKVSISPESDRPDLSTFMESGEWVMKDYR 206
Query: 225 TNDRKEKLA---TGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSA 281
Y ++ F +QR YFV +P +L L+ + F++ ++
Sbjct: 207 GWKHWVYYTCCPDTPYLDITYHFIMQRIPLYFVVNVIIPCLLFSFLTVLVFYLPTDSG-E 265
Query: 282 RVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALLEYAAV-NYSYW 339
++ L I+ +L++T + +P S V I Y++ +FV ++++ V N +
Sbjct: 266 KMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLFTMIFVISSIIVTVVVINTHHR 325
Query: 340 ADRAKKKPK 348
+ P+
Sbjct: 326 SPSTHTMPQ 334
>4aq5_B Acetylcholine receptor beta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_B
Length = 493
Score = 117 bits (295), Expect = 2e-29
Identities = 66/295 (22%), Positives = 135/295 (45%), Gaps = 21/295 (7%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
+S L Y+ ++RP GD + V + LT+ S ++E + + T +++LN W D RL +
Sbjct: 32 LSVLFENYNPKVRPSQTVGDKVTVRVGLTLTSLLILNEKNEEMTTSVFLNLAWTDYRLQW 91
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
+ L++ D +W PD N+ + N V + G++++
Sbjct: 92 DPAAYEGIKDLSIPSD---DVWQPDIVLMNNNDGSFEITLHVN--VLVQHTGAVSWHPSA 146
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTV--LDVVMYWKETPVRGVEEAQLPQFT--- 219
+C + + Y+P D QNCT+ +SY Y + + R V+E + Q
Sbjct: 147 IYRSSCTIKVMYFPFDWQNCTMVFKSYTYDTSEVILQHALDAKGEREVKEIMINQDAFTE 206
Query: 220 ----ILGHETNDRKEKLATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWIN 275
+ H+ + + + +Y+ ++ +QR +++ T +P ILI +L+ + F++
Sbjct: 207 NGQWSIEHKPSRKNWRSDDPSYEDVTFYLIIQRKPLFYIVYTIVPCILISILAILVFYLP 266
Query: 276 HEATSARVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALL 329
+A +++L I+ +L +T + +P S V I YL+ + V +++
Sbjct: 267 PDA-GEKMSLSISALLALTVFLLLLADKVPETSLSVPIIISYLMFIMILVAFSVI 320
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 115 bits (290), Expect = 7e-29
Identities = 60/297 (20%), Positives = 117/297 (39%), Gaps = 22/297 (7%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
I +LL YD R++P + V + LT+ + S++E T +++ W D RL++
Sbjct: 7 IEKLLGDYDKRIKPAKTLDHVIDVTLKLTLTNLISLNEKEEALTTNVWIEIQWNDYRLSW 66
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
++ + +++ + +E +W+PD N+ + N V + DGS+ +
Sbjct: 67 NTSEYEGIDLVRIP---SELLWLPDVVLENNVDGQFEVAYYAN--VLVYNDGSMYWLPPA 121
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEE--AQLPQFT--- 219
C + + Y+P D QNC++ S Y +V + VE FT
Sbjct: 122 IYRSTCPIAVTYFPFDWQNCSLVFRSQTYNAHEVNLQLSAEEGEVVEWIHIDPEDFTENG 181
Query: 220 --ILGHETNDRKEKL----ATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFW 273
+ H + +Q + +QR +++ P +LI L + ++
Sbjct: 182 EWTIRHRPAKKNYNWQLTKDDIDFQEIIFFLIIQRKPLFYIINIIAPCVLISSLVVLVYF 241
Query: 274 INHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALL 329
+ +A + L I+ +L T + +P S V I YL+ +
Sbjct: 242 LPAQAGGQKCTLSISVLLAQTIFLFLIAQKVPETSLNVPLIGKYLIFVMFVSLVIVT 298
>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 = 109 bits (274), Expect = 3e-27
Identities = 57/287 (19%), Positives = 122/287 (42%), Gaps = 20/287 (6%)
Query: 53 LLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSE 111
+++ Y+ +RP + + + + LT+++ S+ E T ++++ W D RL +++
Sbjct: 13 IVNKYNKHVRPVKHNNEVVNIALSLTLSNLISLKETDETLTTNVWMDHAWYDHRLTWNAS 72
Query: 112 D----EVLTLSGDFAEKIWVPDTFFAN--DKNSFLHDVTERNKLVRLNGDGSITYGMRFT 165
+ +L L E IW+PD N D ++V V + +G +T+
Sbjct: 73 EYSDISILRLR---PELIWIPDIVLQNNNDGQ---YNVAYFCN-VLVRPNGYVTWLPPAI 125
Query: 166 TTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVE--EAQLPQFTILGH 223
+C +++ Y+P D QNC+++ + Y ++ M P E E ++ +
Sbjct: 126 FRSSCPINVLYFPFDWQNCSLKFTALNYNANEISMDLIIDPEAFTENGEWEIIHKPAKKN 185
Query: 224 ETNDRKEKLATGTYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARV 283
D+ YQ ++ ++R ++V P +LI L+ ++F++ E + ++
Sbjct: 186 IYGDKFP--NGTNYQDVTFYLIIRRKPLFYVINFITPCVLISFLAALAFYLPAE-SGEKM 242
Query: 284 ALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALL 329
+ I +L LP + V I YL+ V ++
Sbjct: 243 STAICVLLAQAVFLLLTSQRLPETALAVPLIGKYLMFIMSLVTGVVV 289
>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 = 101 bits (253), Expect = 4e-27
Identities = 46/72 (63%), Positives = 57/72 (79%), Gaps = 3/72 (4%)
Query: 281 ARVALGITTVLTMTTISTGVRSSLPRISYVKAIDIYLVMCFVFVFAALLEYAAVNYSYWA 340
ARV LGITTVLT+TT S+G R+SLP++SYVKAIDI+L +C +FVF+ALLEYAAVN+
Sbjct: 3 ARVGLGITTVLTLTTQSSGSRASLPKVSYVKAIDIWLAVCLLFVFSALLEYAAVNF---V 59
Query: 341 DRAKKKPKAKEP 352
R KKK + E
Sbjct: 60 SRKKKKHRLLEH 71
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 104 bits (261), Expect = 6e-25
Identities = 56/316 (17%), Positives = 124/316 (39%), Gaps = 28/316 (8%)
Query: 55 HGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFSSED- 112
+ Y+ +RP + + + + LT+++ S+ E T ++++ W D RL +++ +
Sbjct: 36 NKYNKHVRPVKHNNEVVNIALSLTLSNLISLKETDETLTTNVWMDHAWYDHRLTWNASEY 95
Query: 113 ---EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTTTLA 169
+L L E IW+PD N+ + + N V + +G +T+ +
Sbjct: 96 SDISILRLR---PELIWIPDIVLQNNNDGQYNVAYFCN--VLVRPNGYVTWLPPAIFRSS 150
Query: 170 CMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHETNDRK 229
C +++ Y+P D QNC+++ + Y ++ M + G + T + +
Sbjct: 151 CPINVLYFPFDWQNCSLKFTALNYNANEISMDLMTDTIDGKDYPIEWIIIDPEAFTENGE 210
Query: 230 EKLATGT---------------YQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWI 274
++ YQ ++ ++R ++V P +LI L+ ++F++
Sbjct: 211 WEIIHKPAKKNIYGDKFPNGTNYQDVTFYLIIRRKPLFYVINFITPCVLISFLAALAFYL 270
Query: 275 NHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALLEYAA 333
E + +++ I +L LP + V I YL+ V ++
Sbjct: 271 PAE-SGEKMSTAICVLLAQAVFLLLTSQRLPETALAVPLIGKYLMFIMSLVTGVVVNCGI 329
Query: 334 V-NYSYWADRAKKKPK 348
V N+ +
Sbjct: 330 VLNFHFRTPSTHVLST 345
>2qc1_B Acetylcholine receptor subunit alpha; nicotinic acetylcholine
receptor, glycosylated protein, beta sandwich, Cys-loop,
buried hydrophilic residues; HET: NAG MAN; 1.94A {Mus
musculus} PDB: 1l4w_B 1ljz_B
Length = 212
Score = 84.4 bits (209), Expect = 2e-19
Identities = 36/163 (22%), Positives = 69/163 (42%), Gaps = 10/163 (6%)
Query: 50 ISQLLHGYDIRLRP-NFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAF 108
++L Y +RP + + V + L + ++ EV+ T + L Q W D L +
Sbjct: 9 EAKLFEDYSSVVRPVEDHREIVQVTVGLQLIQLINVDEVNQIVTTNVRLKQQWVDYNLKW 68
Query: 109 SSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRF 164
+ +D + + + +EKIW PD N+ + V V L+ G IT+
Sbjct: 69 NPDDYGGVKKIHIP---SEKIWRPDVVLYNNADGDFAIVKFTK--VLLDYTGHITWTPPA 123
Query: 165 TTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPV 207
C + + ++P D QNC++++ + Y V + +
Sbjct: 124 IFKSYCEIIVTHFPFDEQNCSMKLGTRTYDGSAVAINPESDQP 166
>2wn9_A Soluble acetylcholine receptor; 4-0H-DMXBA, acetylcholine binding
protein; HET: ZY5 NAG BMA MAN; 1.75A {Aplysia
californica} PDB: 2wnj_A* 2wzy_A* 2x00_A* 3peo_A*
2pgz_A* 2ph9_A* 4dbm_A* 3c84_A* 2byq_A* 2byr_A* 2bys_A*
2wnc_A* 2wnl_A* 3c79_A* 2byn_A* 3pmz_A* 2x00_D* 2xnv_A*
2xnt_A* 2xnu_A* ...
Length = 228
Score = 78.7 bits (194), Expect = 4e-17
Identities = 34/212 (16%), Positives = 64/212 (30%), Gaps = 14/212 (6%)
Query: 50 ISQLLHGYDIRLRPNFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFS 109
S L + + P DPL V + T+ + + + Y Q WK + L +
Sbjct: 19 KSDLFNRSPMYPGPTKD-DPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWD 77
Query: 110 SED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFT 165
+ S A IW PD + ++ + DGS+ +
Sbjct: 78 PNEYGNITDFRTS---AADIWTPDITAYSSTRPV---QVLSPQIAVVTHDGSVMFIPAQR 131
Query: 166 TTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGH-- 223
+ C + C V+ S+ Y+ ++ + V ++ IL
Sbjct: 132 LSFMCDPT-GVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQ 190
Query: 224 ETNDRKEKLATGTYQRLSLSFKLQRNIGYFVF 255
+ Y ++L K + F
Sbjct: 191 TRQVQHYSCCPEPYIDVNLVVKFRERRAGNGF 222
>1uw6_A Acetylcholine-binding protein; pentamer, IGG fold, nicotine,
glycoprotein; HET: NCT; 2.2A {Lymnaea stagnalis} SCOP:
b.96.1.1 PDB: 1i9b_A* 1ux2_A* 3u8l_A* 1yi5_A 1uv6_A*
3u8k_A* 3u8j_B* 3u8m_A* 3u8n_A* 2zju_A* 2zjv_A*
Length = 211
Score = 78.0 bits (192), Expect = 5e-17
Identities = 35/211 (16%), Positives = 75/211 (35%), Gaps = 12/211 (5%)
Query: 51 SQLLHGYDIRLRPNFG----GDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRL 106
+ +L+ RP+ P+ V + L + ++E++ + + + W D L
Sbjct: 5 ADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTL 64
Query: 107 AFSSEDEVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFTT 166
A++S +S +WVPD N+ +L R+ DG + Y
Sbjct: 65 AWNSSHSPDQVSVP-ISSLWVPDLAA---YNAISKPEVLTPQLARVVSDGEVLYMPSIRQ 120
Query: 167 TLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEE-AQLPQFTILGH-- 223
+C + C ++I S+ + ++ + E +Q +F IL
Sbjct: 121 RFSCDVSGVDTE-SGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQ 179
Query: 224 ETNDRKEKLATGTYQRLSLSFKLQRNIGYFV 254
+ N Y+ + +S ++ +
Sbjct: 180 KKNSVTYSCCPEAYEDVEVSLNFRKKGRSEI 210
>3sq6_A ACHBP, neuronal acetylcholine receptor subunit alpha-7,
acetylcholine-binding protein; nicotinic receptor; HET:
EPJ NAG; 2.80A {Homo sapiens} PDB: 3sq9_A*
Length = 204
Score = 76.4 bits (188), Expect = 2e-16
Identities = 29/205 (14%), Positives = 74/205 (36%), Gaps = 15/205 (7%)
Query: 50 ISQLLHGYDIRLRPNFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFS 109
+L+ Y+ + P P+ V L++ + E + + +L W D L ++
Sbjct: 7 YKELVKNYNPDVIPTQRDRPVTVYFSLSLLQIMDVDEKNQVVDVVFWLQMSWTDHYLQWN 66
Query: 110 SED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFT 165
+ + +++ +WVPD N + +L +N G + Y
Sbjct: 67 VSEYPGVKQVSVP---ISSLWVPDLAAYNAISKP---EVLTPQLALVNSSGHVQYLPSIR 120
Query: 166 TTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQFTILGHET 225
+C + C ++ S+ + ++ + +E + G +F ++G
Sbjct: 121 QRFSCDVSGVDTE-SGATCKLKFGSWTHHSRELDLQMQEADISGYIPY--SRFELVGVTQ 177
Query: 226 --NDRKEKLATGTYQRLSLSFKLQR 248
++R + Y ++ + ++
Sbjct: 178 KRSERFYECCKEPYPDVTFTVTFRK 202
>4afh_A ACHBP; acetylcholine-binding protein, nicotinic receptor, ION
chann; HET: NAG BMA MAN L0B; 1.88A {Capitella teleta}
PDB: 4afg_A*
Length = 230
Score = 70.7 bits (173), Expect = 3e-14
Identities = 32/220 (14%), Positives = 72/220 (32%), Gaps = 24/220 (10%)
Query: 50 ISQLLHGYDIRLRPNF----GGDPLYVGMDLTIASFDSISEVSMDYTITMYLN----QYW 101
+LL+ Y+ + + V L++ SI + M + W
Sbjct: 10 RRELLNTYEQLGKSGLPFLDDIGKVDVKFGLSLQLLKSIEQRGMGFNSIGTFKAIVKLSW 69
Query: 102 KDDRLAFSSED----EVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGS 157
D L + E + + +S D +IW PD N + + + +G+
Sbjct: 70 VDTILRWDPEPPFDFQKIEISPD---EIWTPDIKLFNSVDLDMTLDRTTQ--AIVFSNGT 124
Query: 158 ITYGMRFTTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEEAQLPQ 217
+ + + C+ D +C + S+ Y+V +V +++ + + +
Sbjct: 125 VLWIPPAVLKVLCVSQ-----DDVDSCHFQFGSWVYSVDEVDIHFMDDKAEVLLDFYQDS 179
Query: 218 FTILGH--ETNDRKEKLATGTYQRLSLSFKLQRNIGYFVF 255
IL + + + Y + L+ G +
Sbjct: 180 LEILENSAQRQEVVYPCCESAYVEMKYLLALRSENGNSTY 219
>2bj0_A Acetylcholine-binding protein; 3D-structure, glycoprotein,
glycprotein, IGG fold, immunoglobulin domain, pentamer,
signal; HET: CXS; 2.0A {Bulinus truncatus}
Length = 203
Score = 65.2 bits (159), Expect = 1e-12
Identities = 35/207 (16%), Positives = 74/207 (35%), Gaps = 11/207 (5%)
Query: 48 QTISQLLHG--YDIRLRPNFGGDPLYVGMDLTIASFDSISEVSMDYTITMYLNQYWKDDR 105
Q LL+ + + P PL V ++ + + + ++ WK
Sbjct: 1 QIRWTLLNQITGESDVIPLSNNTPLNVSLNFKLMNIVEADTEKDQVEVVLWTQASWKVPY 60
Query: 106 LAFSSEDEVLTLSGDFAEKIWVPDTFFANDKNSFLHDVTERNKLVRLNGDGSITYGMRFT 165
+ L K+W PD F N + ++ ++ V ++ DGS+ Y
Sbjct: 61 YSSLLSSSSLDQVSLPVSKMWTPDLSFYNAIAAP--ELLSADR-VVVSKDGSVIYVPSQR 117
Query: 166 TTLAC-MMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWKETPVRGVEE-AQLPQFTILGH 223
C ++++ P C +++ S+ + + E V + E P+F +L
Sbjct: 118 VRFTCDLINVDTEP--GATCRIKVGSWTHDNKQFALITGEEGVVNIAEYFDSPKFDLLSA 175
Query: 224 --ETNDRKEKLATGTYQRLSLSFKLQR 248
N +K Y + ++F ++
Sbjct: 176 TQSLNRKKYSCCENMYDDIEITFAFRK 202
>1mot_A Glycine receptor alpha-1 chain; second transmembrane domain,
micelles, membrane protein; NMR {Homo sapiens} SCOP:
j.35.1.1
Length = 28
Score = 51.6 bits (123), Expect = 2e-09
Identities = 20/28 (71%), Positives = 23/28 (82%)
Query: 279 TSARVALGITTVLTMTTISTGVRSSLPR 306
ARV LGITTVLTMTT S+G R+SLP+
Sbjct: 1 APARVGLGITTVLTMTTQSSGSRASLPK 28
>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 = 52.5 bits (126), Expect = 2e-08
Identities = 25/130 (19%), Positives = 52/130 (40%), Gaps = 9/130 (6%)
Query: 236 TYQRLSLSFKLQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTT 295
+ L +R ++ +P +LI L+ + F++ + ++ L I+ +L +T
Sbjct: 14 GTENLYFQSNARRKPLFYTINLIIPCVLITSLAILVFYLPSDCG-EKMTLCISVLLALTV 72
Query: 296 ISTGVRSSLPRIS-YVKAIDIYLVMCFVFVFAALLEYAAV-NYSYWADRAKKKPKAKEPT 353
+ +P S V + YL+ V V +++ V N + + P P
Sbjct: 73 FLLLISKIVPPTSLDVPLVGKYLMFTMVLVTFSIVTSVCVLNVHH------RSPTTHTPR 126
Query: 354 PLGNYIRLCI 363
G Y+ + I
Sbjct: 127 GGGGYVAMVI 136
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane
domain, transport PROT; NMR {Homo sapiens}
Length = 137
Score = 50.5 bits (121), Expect = 4e-08
Identities = 19/105 (18%), Positives = 44/105 (41%), Gaps = 3/105 (2%)
Query: 246 LQRNIGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLP 305
+ ++ +P +LI L+ + F++ E ++ L I+ +L++T + +P
Sbjct: 3 AEELPLFYTINLIIPCLLISCLTVLVFYLPSEC-GEKITLCISVLLSLTVFLLLITEIIP 61
Query: 306 RIS-YVKAIDIYLVMCFVFVFAALLEYAAV-NYSYWADRAKKKPK 348
S +I YL+ +FV +++ V N + +
Sbjct: 62 STSSVSPSIGEYLLFTMIFVTLSIVITVFVLNVHHRSPETHTGGG 106
>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 = 48.8 bits (115), Expect = 9e-07
Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 252 YFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YV 310
+++ P +LI L + +++ +A + L I+ +L T + +P S V
Sbjct: 3 FYIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIFLFLIAQKVPETSLNV 62
Query: 311 KAIDIYLVMCFVFVFAALL 329
I YL+ ++
Sbjct: 63 PLIGKYLIFVMFVSMLIVM 81
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR
{Torpedo marmorata} PDB: 2lkh_A
Length = 140
Score = 46.8 bits (111), Expect = 1e-06
Identities = 14/79 (17%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 252 YFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YV 310
YFV P L+ + F++ ++ ++ + + ++T + +P S V
Sbjct: 51 YFVVNVIEPCKKFSELTGLVFYLPTDSG-EKMTESKSVLKSLTEKLKKIVELIPSTSSAV 109
Query: 311 KAIDIYLVMCFVFVFAALL 329
I Y++ FV +++
Sbjct: 110 PLIGKYMLFTKEFVESSIK 128
>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 = 45.7 bits (107), Expect = 9e-06
Identities = 19/79 (24%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 252 YFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YV 310
+++ T +P ILI +L+ + F++ +A +++L I+ +L +T + +P S V
Sbjct: 3 FYIVYTIIPCILISILAILVFYLPPDAGE-KMSLSISALLAVTVFLLLLADKVPETSLSV 61
Query: 311 KAIDIYLVMCFVFVFAALL 329
I YL+ + V +++
Sbjct: 62 PIIIRYLMFIMILVAFSVI 80
>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 = 43.7 bits (102), Expect = 4e-05
Identities = 18/99 (18%), Positives = 38/99 (38%), Gaps = 3/99 (3%)
Query: 252 YFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YV 310
++V P +LI L+ ++F++ E+ +++ I+ +L LP + V
Sbjct: 3 FYVINFITPCVLISFLASLAFYLPAESG-EKMSTAISVLLAQAVFLLLTSQRLPETALAV 61
Query: 311 KAIDIYLVMCFVFVFAALLEYAAV-NYSYWADRAKKKPK 348
I YL+ V ++ V N+ +
Sbjct: 62 PLIGKYLMFIMSLVTGVIVNCGIVLNFHFRTPSTHVLST 100
>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 = 43.2 bits (101), Expect = 4e-05
Identities = 21/99 (21%), Positives = 47/99 (47%), Gaps = 3/99 (3%)
Query: 252 YFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRIS-YV 310
YFV +P +L L+ + F++ ++ ++ L I+ +L++T + +P S V
Sbjct: 3 YFVVNVIIPCLLFSFLTGLVFYLPTDS-GEKMTLSISVLLSLTVFLLVIVELIPSTSSAV 61
Query: 311 KAIDIYLVMCFVFVFAALLEYAAV-NYSYWADRAKKKPK 348
I Y++ +FV ++++ V N + + P+
Sbjct: 62 PLIGKYMLFTMIFVISSIIITVVVINTHHRSPSTHTMPQ 100
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 36.4 bits (83), Expect = 0.017
Identities = 33/283 (11%), Positives = 82/283 (28%), Gaps = 86/283 (30%)
Query: 22 IGNSDSEKL------RLCHKKSATTERLANVTQTISQLLHGYDIRLRPNFGGDPLYVGMD 75
+ N +S + +L ++ ++ + I +H LR Y
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-RLLKSKPYENCL 247
Query: 76 L---------TIASFDSISEV---SMDYTITMYLNQYW------KDDRLAFSSEDEVLTL 117
L +F+ ++ + +T +L+ + + DEV +L
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL-TPDEVKSL 306
Query: 118 SGDFAEKIWVPD---------------TFFANDKNSFLHDVTERNK-LVRLNGDGSITYG 161
+ + + A + D +N D
Sbjct: 307 ---LLKYLDCRPQDLPREVLTTNPRRLSIIA----ESIRDGLATWDNWKHVNCD------ 353
Query: 162 MRFTTTL-ACMMDL------HYY------PLDNQNCTVEIESYGYTVLDVVMYWKETPVR 208
+ TT + + + L + P I + +L + W +
Sbjct: 354 -KLTTIIESSLNVLEPAEYRKMFDRLSVFPPS-----AHIPT---ILL--SLIWFDVIKS 402
Query: 209 GVEE--AQLPQFTILGHETNDRKEKLATGTYQRLSLSFKLQRN 249
V +L +++++ +++ K +T + + L K++
Sbjct: 403 DVMVVVNKLHKYSLV-----EKQPKESTISIPSIYLELKVKLE 440
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 31.0 bits (70), Expect = 0.67
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 9 IPDFNSENELESQIGNSDSEKLRLCHKKSAT-TERL-ANVTQTISQLLHGYDIR------ 60
IP F + E ++ + DS K H+ T R+ V + S G + R
Sbjct: 570 IP-FAAIPEQGIELEHIDS-KSEFAHRIMLTNILRMMGCVKKQKSA--RGIETRPAQVIL 625
Query: 61 -LRPN---FGGDPLY 71
+ PN FGGD +Y
Sbjct: 626 PMSPNHGTFGGDGMY 640
>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 = 29.2 bits (65), Expect = 2.6
Identities = 31/193 (16%), Positives = 59/193 (30%), Gaps = 80/193 (41%)
Query: 156 GSITYGMRFTTTLACMMDLHYYPLDNQNCTV--EI---------ESYGYTVLDVVMYWKE 204
GS GM MDL Y + ++ ++YG+++LD+V
Sbjct: 1625 GSQEQGMG--------MDL--Y----KTSKAAQDVWNRADNHFKDTYGFSILDIV---IN 1667
Query: 205 TPVRGVEEAQLPQFTIL-----GHETNDR-----KEKLATGTYQRLSLSFKLQRNIGYFV 254
P TI G + E + G + + ++ + +
Sbjct: 1668 NP---------VNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT 1718
Query: 255 F--------QTYL--PSILIV-------MLSWVSFWINHEAT---------SARVALGIT 288
F T P++ ++ + S I +AT +A +L
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKAAFEDLKSK--GLIPADATFAGHSLGEYAALASLA-- 1774
Query: 289 TVLTMTTISTGVR 301
V+ +I + V
Sbjct: 1775 DVM---SIESLVE 1784
>2jln_A MHP1; hydantoin, transporter, membrane protein,
nucleobase-cation-symport-1 family; 2.85A
{Microbacterium liquefaciens} PDB: 2jlo_A* 2x79_A
Length = 501
Score = 28.6 bits (64), Expect = 3.9
Identities = 8/77 (10%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 250 IGYFVFQTYLPSILIVMLSWVSFWINHEATSARVALGITTVLTMTTISTGVRSSLPRISY 309
+ +F FQT+L ++ + ++ + + + + I + + T G+ + ++
Sbjct: 115 LFWFGFQTWLGALALDEITRLLTGFTNLP----LWIVIFGAIQVVTTFYGIT-FIRWMNV 169
Query: 310 VKAIDIYLVMCFVFVFA 326
+ + + ++
Sbjct: 170 FASPVLLAMGVYMVYLM 186
>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix,
metal ION, ACT DNA-binding, ferrous iron, transcription;
1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A
1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A
1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A
1xcv_A 1f5t_A ...
Length = 226
Score = 27.9 bits (62), Expect = 4.1
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 102 KDDRLAFSSEDEVLTLSGDFAEKIWV 127
+D + S + + L D A I +
Sbjct: 198 RDGHITLSHNGKDVELLDDLAHTIRI 223
>3v8x_A Transferrin-binding protein 1; iron binding protein, transferrin
binding protein A, iron binding/scavenging, membrane
protein-metal transport comple; HET: C8E NAG BMA MAN GAL
SIA; 2.60A {Neisseria meningitidis serogroup B} PDB:
3v89_A
Length = 904
Score = 27.4 bits (59), Expect = 8.5
Identities = 7/53 (13%), Positives = 15/53 (28%)
Query: 151 RLNGDGSITYGMRFTTTLACMMDLHYYPLDNQNCTVEIESYGYTVLDVVMYWK 203
+ +G +TY T + + ++DV Y+
Sbjct: 792 KWGVNGMLTYSKAKEITELLGSRALLNGNSRNTKATARRTRPWYIVDVSGYYT 844
>2bde_A Cytosolic IMP-GMP specific 5'-nucleotidase; alpha beta protein,
structural genomics, PSI, protein struct initiative;
2.90A {Legionella pneumophila} SCOP: c.108.1.23
Length = 470
Score = 27.3 bits (60), Expect = 9.5
Identities = 20/111 (18%), Positives = 44/111 (39%), Gaps = 11/111 (9%)
Query: 89 MDYTITMYLNQYWKDDRLAFSSEDEVLTLSGDFAEKI--WVPDTFFANDKNSFLHDVTER 146
MD+T+ Y ++ + + L + E L S + E+I + + A L ++
Sbjct: 24 MDHTLIRYNSKNF--ESLVYDLVKERLAESFHYPEEIKKFKFNFDDAIRG---LVIDSKN 78
Query: 147 NKLVRLNGDGSITYGMRFTTTLACMMDLHYYPLDNQNCTVEIESYGYTVLD 197
+++L+ G+I T ++ Y + V++ Y +D
Sbjct: 79 GNILKLSRYGAIRLSYHGTKQISFSDQKKIYR----SIYVDLGDPNYMAID 125
>3hft_A WBMS, polysaccharide deacetylase involved in O-AN biosynthesis;
structural genomics, joint center for structural
genomics; HET: MSE; 1.90A {Bordetella bronchiseptica}
Length = 257
Score = 27.0 bits (59), Expect = 9.6
Identities = 16/80 (20%), Positives = 29/80 (36%), Gaps = 12/80 (15%)
Query: 74 MDLTIASFDSISEVSMDYTITMYLNQYWKDDRLAFS-----SEDEVLTLSGDFAEKIWVP 128
M F IS++ ++ + W+ R+ + + D VL + D E V
Sbjct: 14 MRRYDNKFARISDIDINQPES------WRG-RIFLTFDIDWAADFVLQDTIDLIEGAGVC 66
Query: 129 DTFFANDKNSFLHDVTERNK 148
T+FA L ++
Sbjct: 67 ATWFATHSTPLLENIRRNPL 86
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
0.321 0.135 0.404
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: 5,484,026
Number of extensions: 318480
Number of successful extensions: 608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 538
Number of HSP's successfully gapped: 38
Length of query: 365
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 270
Effective length of database: 4,049,298
Effective search space: 1093310460
Effective search space used: 1093310460
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.6 bits)