RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18229
(111 letters)
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 82.5 bits (203), Expect = 5e-20
Identities = 27/119 (22%), Positives = 48/119 (40%), Gaps = 8/119 (6%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKIT------- 53
MF+ V V+VLN RT ++H + + I+ LFL+++P L M + T
Sbjct: 290 MFVSLVIVTNCVIVLNVSLRTPNTHSLSEKIKHLFLEFLPKYLGMHLEPSEETPEKPQPR 349
Query: 54 -RKTIAMSNKMRELELKERTSKSLMANVLNIDDDFRHVTASSMSNSSNFIRSEVLLSQQ 111
R + + K E LK+ S+ + + R +S + + L+
Sbjct: 350 RRSSFGIMIKAEEYILKKPRSELMFEEQKDRHGLKRVNKMTSDIDIGTTVDLYKDLANF 408
>4aq5_B Acetylcholine receptor beta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_B
Length = 493
Score = 80.6 bits (198), Expect = 3e-19
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMS 60
M +VA SV+L+VVVLN HHR+ ++H MP+WIR +F++ +P L +QRP + +
Sbjct: 312 MILVAFSVILSVVVLNLHHRSPNTHTMPNWIRQIFIETLPPFLWIQRPVTTPSPDSKPTI 371
Query: 61 NKMRELELKERTSKS 75
E R
Sbjct: 372 ISRANDEYFIRKPAG 386
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 77.9 bits (191), Expect = 2e-18
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 6/89 (6%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMS 60
M +V VV +VLN+H RT +H + ++ +FL+ +P IL M R +
Sbjct: 317 MSLVTGVVVNCGIVLNFHFRTPSTHVLSTRVKQIFLEKLPRILHMSRVDEIEQP------ 370
Query: 61 NKMRELELKERTSKSLMANVLNIDDDFRH 89
+ +L+L+ +S ++ +
Sbjct: 371 DWQNDLKLRRSSSVGYISKAQEYFNIKSR 399
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane
domain, transport PROT; NMR {Homo sapiens}
Length = 137
Score = 72.5 bits (178), Expect = 6e-18
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKK 51
M V S+V+TV VLN HHR+ ++H W+ I+C+
Sbjct: 78 MIFVTLSIVITVFVLNVHHRSPETHTGGGGGIDRIFLWMFIIVCLLGTVGL 128
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_A
Length = 461
Score = 72.0 bits (176), Expect = 2e-16
Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHK 50
M V SS+++TVVV+N HHR+ +H MP W+R +F+ IP ++ +
Sbjct: 306 MIFVISSIIVTVVVINTHHRSPSTHTMPQWVRKIFINTIPNVMFFSTMKR 355
>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 = 68.3 bits (166), Expect = 1e-15
Identities = 21/64 (32%), Positives = 33/64 (51%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMS 60
M V SS+++TVVV+N HHR+ +H MP W+R +F+ IP ++ + K
Sbjct: 72 MIFVISSIIITVVVINTHHRSPSTHTMPQWVRKIFIDTIPNVMFFSTMKRASKEKQENKI 131
Query: 61 NKMR 64
Sbjct: 132 FADD 135
>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 = 68.8 bits (167), Expect = 2e-15
Identities = 19/100 (19%), Positives = 37/100 (37%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMS 60
M +V +V +VLN+H RT +H + ++ +FL+ +P IL M R +
Sbjct: 72 MSLVTGVIVNCGIVLNFHFRTPSTHVLSTRVKQIFLEKLPRILHMSRADESEQPDWQNDL 131
Query: 61 NKMRELELKERTSKSLMANVLNIDDDFRHVTASSMSNSSN 100
R + + N+ + + +
Sbjct: 132 KLRRSSSVGYISKAQEYFNIKSRSELMFEKQSERHGLVPR 171
>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 = 65.3 bits (158), Expect = 3e-14
Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 8/113 (7%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKIT------- 53
MF+ V+ V+VLN RT ++H + + I+ LFL ++P L MQ + T
Sbjct: 73 MFVSMLIVMNCVIVLNVSLRTPNTHSLSEKIKHLFLGFLPKYLGMQLEPSEETPEKPQPR 132
Query: 54 -RKTIAMSNKMRELELKERTSKSLMANVLNIDDDFRHVTASSMSNSSNFIRSE 105
R + + K E LK+ S+ + + R +S + +
Sbjct: 133 RRSSFGIMIKAEEYILKKPRSELMFEEQKDRHGLKRVNKMTSDIDIGTTVDLY 185
>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 = 63.8 bits (154), Expect = 9e-14
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMS 60
M +VA SV+L+VVVLN HHR+ ++H MP+WIR +F++ +P L +QRP + +
Sbjct: 72 MILVAFSVILSVVVLNLHHRSPNTHTMPNWIRQIFIETLPPFLWIQRPVTTPSPDSKPTI 131
Query: 61 NKMRELELKERTSKS 75
E R
Sbjct: 132 ISRANDEYFIRKPAG 146
>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 = 56.0 bits (135), Expect = 2e-11
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLF------LQWIPWILCMQRPHKK 51
M +V S+V +V VLN HHR+ +H ++ WI +C+
Sbjct: 99 MVLVTFSIVTSVCVLNVHHRSPTTHTPRGGGGYVAMVIDRLFLWIFVFVCVFGTIGM 155
>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 = 52.2 bits (125), Expect = 2e-09
Identities = 11/48 (22%), Positives = 17/48 (35%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRP 48
MF+ V V+VLN RT ++H + F+
Sbjct: 283 MFVSLVIVTNCVIVLNVSLRTPNTHSCVEACNFIAKSTKEQNDSGSEN 330
>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 = 51.0 bits (122), Expect = 5e-09
Identities = 13/49 (26%), Positives = 20/49 (40%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPH 49
M +V VV +VLN+H RT +H D ++ Q +
Sbjct: 281 MSLVTGVVVNCGIVLNFHFRTPSTHSGIDSTNYIVKQIKEKNAYDEEVG 329
>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 = 50.3 bits (120), Expect = 1e-08
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRPH 49
M +VA SV+L+VVVLN HHR+ ++HE + I+++ Q
Sbjct: 279 MILVAFSVILSVVVLNLHHRSPNTHEAVEAIKYIAEQLESASEFDDLKK 327
>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 = 49.1 bits (117), Expect = 2e-08
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQ 37
M V SS+++TVVV+N HHR+ +H + ++++
Sbjct: 282 MIFVISSIIVTVVVINTHHRSPSTHSAIEGVKYIAEH 318
>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 = 42.3 bits (100), Expect = 6e-06
Identities = 8/53 (15%), Positives = 13/53 (24%), Gaps = 8/53 (15%)
Query: 1 MFMVASSVVLTVVV--LNYHHRTADSHEMPDWIRFLF------LQWIPWILCM 45
+V+ V L + A + + R F I L
Sbjct: 267 YLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 319
>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 = 41.9 bits (99), Expect = 9e-06
Identities = 5/48 (10%), Positives = 15/48 (31%)
Query: 1 MFMVASSVVLTVVVLNYHHRTADSHEMPDWIRFLFLQWIPWILCMQRP 48
+ ++++L + + + + R F I C+
Sbjct: 270 YGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVI 317
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR
{Torpedo marmorata} PDB: 2lkh_A
Length = 140
Score = 38.7 bits (90), Expect = 6e-05
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 1 MFMVASSVVLTVVVLNYHHRT 21
V SS+ +T V+N HHR+
Sbjct: 120 KEFVESSIKITEEVINTHHRS 140
>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 = 32.9 bits (74), Expect = 0.015
Identities = 15/115 (13%), Positives = 38/115 (33%), Gaps = 33/115 (28%)
Query: 15 LNYHHRTADSHEMPDWIRFLFL--QWIPWILCMQRPHKKITRKTIA------MSNKMREL 66
+ +H + + E R +FL +++ +KI + A + N +++L
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFL---------EQKIRHDSTAWNASGSILNTLQQL 527
Query: 67 EL-----------KERTSKSLMANVLN-----IDDDFRHVTASSMSNSSNFIRSE 105
+ ER +++ + I + + ++ I E
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
Score = 32.5 bits (73), Expect = 0.021
Identities = 16/104 (15%), Positives = 24/104 (23%), Gaps = 42/104 (40%)
Query: 16 NYHHRTADSHEMPDWIRFLFLQ-------------WIPWIL------CMQRPHKKI---T 53
N R H + +R L C KI T
Sbjct: 222 NIKLRI---HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC------KILLTT 272
Query: 54 R-KTIA---MSNKMRELELKERT-------SKSLMANVLNIDDD 86
R K + + + L + KSL+ L+
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
>3ttm_A Polyamine transport protein; polyamine binding, putrescine; 2.00A
{Pseudomonas aeruginosa} PDB: 3ttk_A
Length = 346
Score = 26.5 bits (59), Expect = 2.2
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 59 MSNKMRELELKERTSKSLMANVLNIDDDFRHVTAS 93
K + + ++ KS + N N++ D H
Sbjct: 66 FLAKQIKAGVYQKLDKSKLPNWKNLNKDLMHTLEV 100
>1a99_A POTF, putrescine-binding protein; transport, periplasmic
putrescine binding protein (POTF); 2.20A {Escherichia
coli} SCOP: c.94.1.1
Length = 344
Score = 25.7 bits (57), Expect = 3.4
Identities = 5/35 (14%), Positives = 12/35 (34%)
Query: 59 MSNKMRELELKERTSKSLMANVLNIDDDFRHVTAS 93
+ + + KS + N+D + + A
Sbjct: 62 FLERQLTAGVFQPLDKSKLPEWKNLDPELLKLVAK 96
>3ckd_A Invasion plasmid antigen, secreted by the MXI-SPA machinery; E3
ubiquitin ligase, helical, type III effector, structural
PSI-2; 2.65A {Shigella flexneri 2a str} PDB: 3l3p_A
Length = 312
Score = 25.5 bits (55), Expect = 3.9
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 20 RTADSHEMPDWIRFLFLQWIPWILCMQRPHKKITRKTIAMSNKMRELELKERTSKSLMAN 79
R+ + +E DW F W PW ++R + +M E E +R + L A+
Sbjct: 211 RSREENEFTDW----FSLWGPWHAVLKRTEADRWAQAEEQKYEMLENEYSQRVADRLKAS 266
Query: 80 VLNIDDD 86
L+ D D
Sbjct: 267 GLSGDAD 273
>1fft_B Ubiquinol oxidase; electron transport, cytochrome oxidase,
membrane protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: b.6.1.2 f.17.2.1
Length = 315
Score = 25.6 bits (56), Expect = 4.5
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 6/48 (12%)
Query: 1 MFMVASSVVLTVVVLN------YHHRTADSHEMPDWIRFLFLQWIPWI 42
F + VV+ +++ Y D+ P+W ++ + W
Sbjct: 47 AFGLMLIVVIPAILMAVGFAWKYRASNKDAKYSPNWSHSNKVEAVVWT 94
>3ttn_A Polyamine transport protein; polyamine binding protein,
spermidine; HET: SPD; 2.00A {Pseudomonas aeruginosa}
PDB: 3ttl_A*
Length = 340
Score = 25.3 bits (56), Expect = 5.3
Identities = 6/35 (17%), Positives = 11/35 (31%)
Query: 59 MSNKMRELELKERTSKSLMANVLNIDDDFRHVTAS 93
K + ++ KS + N N+D
Sbjct: 63 FLGKQIQAGAFQKLDKSKLPNWKNLDPALLKQLEV 97
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
0.324 0.130 0.388
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,630,092
Number of extensions: 78802
Number of successful extensions: 181
Number of sequences better than 10.0: 1
Number of HSP's gapped: 178
Number of HSP's successfully gapped: 28
Length of query: 111
Length of database: 6,701,793
Length adjustment: 75
Effective length of query: 36
Effective length of database: 4,607,718
Effective search space: 165877848
Effective search space used: 165877848
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.4 bits)