RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3030
(116 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 = 80.9 bits (199), Expect = 2e-19
Identities = 18/75 (24%), Positives = 26/75 (34%)
Query: 20 PRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCG 79
PEI S E FIA+ K+ + E+W + V+D+ + LGT
Sbjct: 405 LANFAPEIKSCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLA 464
Query: 80 IIFQAPSLYDNTAPI 94
I P
Sbjct: 465 IFLTGHLNQVPEFPF 479
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 81.0 bits (199), Expect = 2e-19
Identities = 21/78 (26%), Positives = 32/78 (41%)
Query: 20 PRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCG 79
QL EI S + +I + IK+ + +E V +W V +DR + + T VLGT
Sbjct: 433 SDQLHDEIKSGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIF 492
Query: 80 IIFQAPSLYDNTAPIDIQ 97
I P +
Sbjct: 493 IFVMGNFNRPPAKPFEGD 510
>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 = 24/74 (32%), Positives = 41/74 (55%)
Query: 20 PRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCG 79
P L ++ A E +++IA+ ++ A + +++ +DW+YV+MV DR FL +F C +GT
Sbjct: 418 PVTLPQDLKEAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFS 477
Query: 80 IIFQAPSLYDNTAP 93
I A P
Sbjct: 478 IFLDASHNVPPDNP 491
>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 = 79.9 bits (197), Expect = 4e-19
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 31 FEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDN 90
E +++IA+ ++ A + +++ +DW+YV+MV DR FL +F C +GT I A
Sbjct: 306 VEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPP 365
Query: 91 TAP 93
P
Sbjct: 366 DNP 368
>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 = 73.0 bits (178), Expect = 4e-17
Identities = 20/72 (27%), Positives = 32/72 (44%)
Query: 14 DADNVIPRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAAC 73
+ + QL EI S + +I + IK+ + +E V +W V +DR + + T
Sbjct: 182 NENIAASDQLHDEIKSGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVM 241
Query: 74 VLGTCGIIFQAP 85
VLGT I
Sbjct: 242 VLGTIFIFVMGN 253
>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 = 70.3 bits (171), Expect = 6e-16
Identities = 16/66 (24%), Positives = 25/66 (37%)
Query: 20 PRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCG 79
PEI S E FIA+ K+ + E+W + V+D+ + +GT
Sbjct: 188 LANFAPEIKSCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLA 247
Query: 80 IIFQAP 85
I
Sbjct: 248 IFLTGH 253
>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 = 68.4 bits (166), Expect = 2e-15
Identities = 24/66 (36%), Positives = 40/66 (60%)
Query: 20 PRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCG 79
P L ++ A E +++IA+ ++ A + +++ +DW+YV+MV DR FL VF C +GT
Sbjct: 178 PVTLPQDLKEAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFS 237
Query: 80 IIFQAP 85
I A
Sbjct: 238 IFLDAS 243
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_A
Length = 461
Score = 68.1 bits (166), Expect = 6e-15
Identities = 26/84 (30%), Positives = 44/84 (52%)
Query: 1 MVTHPNTYHASLADADNVIPRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMV 60
+ + + P P++ SA EGV++IA+H+K ++ + E+WKYV+MV
Sbjct: 370 IDISDISGKQVTGEVIFQTPLIKNPDVKSAIEGVKYIAEHMKSDEESSNAAEEWKYVAMV 429
Query: 61 LDRFFLCVFTAACVLGTCGIIFQA 84
+D LCVF C++GT +
Sbjct: 430 IDHILLCVFMLICIIGTVSVFAGR 453
>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 = 67.2 bits (164), Expect = 1e-14
Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 3/60 (5%)
Query: 34 VRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP 93
FIA+ K+ + E+W + V+D+ + LGT I + N P
Sbjct: 313 CNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTG---HLNQVP 369
>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 = 66.4 bits (162), Expect = 3e-14
Identities = 20/51 (39%), Positives = 33/51 (64%)
Query: 34 VRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 84
V++IA+H+K ++ + E+WKYV+MV+D LCVF C++GT +
Sbjct: 312 VKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGR 362
>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 = 62.9 bits (152), Expect = 2e-13
Identities = 26/84 (30%), Positives = 44/84 (52%)
Query: 1 MVTHPNTYHASLADADNVIPRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMV 60
+ + + P P++ SA EGV++IA+H+K ++ + E+WKYV+MV
Sbjct: 136 IDISDISGKQVTGEVIFQTPLIKNPDVKSAIEGVKYIAEHMKSDEESSNAAEEWKYVAMV 195
Query: 61 LDRFFLCVFTAACVLGTCGIIFQA 84
+D LCVF C++GT +
Sbjct: 196 IDHILLCVFMLICIIGTVSVFAGR 219
>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 = 61.8 bits (150), Expect = 1e-12
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 31 FEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDN 90
+ +I + IK+ + +E V +W V +DR + + T VLGT I N
Sbjct: 308 IDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMG---NFN 364
Query: 91 TAP 93
P
Sbjct: 365 RPP 367
>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 = 30.6 bits (68), Expect = 0.092
Identities = 17/65 (26%), Positives = 24/65 (36%), Gaps = 17/65 (26%)
Query: 9 HASLADADNVIPRQLTPEILSA-------FEGVRFIAQHIKDADKDNEIVEDWKYVSMV- 60
H S+ D N IP+ + L + I H+K+ + E MV
Sbjct: 446 HRSIVDHYN-IPKTFDSDDLIPPYLDQYFYS---HIGHHLKNIEHP----ERMTLFRMVF 497
Query: 61 LD-RF 64
LD RF
Sbjct: 498 LDFRF 502
Score = 29.8 bits (66), Expect = 0.22
Identities = 15/85 (17%), Positives = 30/85 (35%), Gaps = 8/85 (9%)
Query: 19 IPRQLTPEILSAFEGVRFIAQHIKDADKDNEIVEDWKYVSMVLDRFFLCVFTAACVLGTC 78
+ IL+ + ++F +I D D E + V+ +LD FL +
Sbjct: 512 TAWNASGSILNTLQQLKFYKPYICDNDPKYE-----RLVNAILD--FLPKIEENLICSKY 564
Query: 79 GIIFQAPSLYDNTAPIDIQMTRITQ 103
+ + +L I + + Q
Sbjct: 565 TDLLRI-ALMAEDEAIFEEAHKQVQ 588
>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 = 29.8 bits (67), Expect = 0.11
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 54 WKYVSMVLDRFFLCVFTAACVLGTCGIIFQ 83
YV+MV+DR FL +F CV GT G+ Q
Sbjct: 129 GGYVAMVIDRLFLWIFVFVCVFGTIGMFLQ 158
>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 = 29.5 bits (66), Expect = 0.27
Identities = 21/117 (17%), Positives = 40/117 (34%), Gaps = 24/117 (20%)
Query: 8 YHASLADADNVIPRQLTPEI-----LSAFEGVRFIAQHIKDADKDN----EIVEDWKY-- 56
L + N +++ E+ L FE + A+ K D EI E +Y
Sbjct: 907 IEPELFNGYNPEKKEMIQEVIVEEDLEPFEASKETAEQFKHQHGDKVDIFEIPETGEYSV 966
Query: 57 -----VSMVLDRF--FLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGI 106
++ + + F + A + T + Y + I Q+ IT + +
Sbjct: 967 KLLKGATLYIPKALRFDRLV--AGQIPTG---WN-AKTYGISDDIISQVDPITLFVL 1017
Score = 27.1 bits (60), Expect = 1.6
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 19/77 (24%)
Query: 43 DADKDNEIVEDW----KYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQM 98
D+ K E V+D KY + +L+ GI P L++ P +M
Sbjct: 878 DS-KTKEPVDDKDVKAKYETSILEH--------------SGIRLIEPELFNGYNPEKKEM 922
Query: 99 TRITQYGISSPPTVAPR 115
+ P A +
Sbjct: 923 IQEVIVEEDLEPFEASK 939
>3h14_A Aminotransferase, classes I and II; YP_167802.1, SPO258 structural
genomics, PSI-2, protein structure initiative; HET: MSE;
1.90A {Silicibacter pomeroyi dss-3}
Length = 391
Score = 26.7 bits (60), Expect = 1.7
Identities = 6/24 (25%), Positives = 8/24 (33%), Gaps = 2/24 (8%)
Query: 92 APIDI--QMTRITQYGISSPPTVA 113
P D + RI Q P +
Sbjct: 244 VPEDQVRVVERIAQNMFICAPHAS 267
>1gd9_A Aspartate aminotransferase; pyridoxal enzyme, temperature
dependence O substrate recognition; HET: PLP; 1.80A
{Pyrococcus horikoshii} SCOP: c.67.1.1 PDB: 1gde_A*
1dju_A*
Length = 389
Score = 26.3 bits (59), Expect = 2.4
Identities = 7/24 (29%), Positives = 10/24 (41%), Gaps = 2/24 (8%)
Query: 92 APIDI--QMTRITQYGISSPPTVA 113
AP I +M + Y + P T
Sbjct: 247 APSWIIERMVKFQMYNATCPVTFI 270
>3d1c_A Flavin-containing putative monooxygenase; NP_373108.1, struc
genomics, joint center for structural genomics, JCSG;
HET: FAD UNL; 2.40A {Staphylococcus aureus}
Length = 369
Score = 25.9 bits (57), Expect = 3.7
Identities = 8/43 (18%), Positives = 18/43 (41%), Gaps = 3/43 (6%)
Query: 34 VRFIAQHI---KDADKDNEIVEDWKYVSMVLDRFFLCVFTAAC 73
+A + + E++E+++ M LD + C + C
Sbjct: 327 FAVLAHLLTQREGLPAKQEVIENYQKNQMYLDDYSCCEVSCTC 369
>2z61_A Probable aspartate aminotransferase 2; amino acid aminotransferase,
kynurenine aminotransferase, MJ0684, cytoplasm; HET:
LLP; 2.20A {Methanococcus jannaschii}
Length = 370
Score = 25.6 bits (57), Expect = 4.8
Identities = 5/24 (20%), Positives = 12/24 (50%), Gaps = 2/24 (8%)
Query: 92 APIDI--QMTRITQYGISSPPTVA 113
+ +I + ++ Q S PT++
Sbjct: 236 SNDEIIEAILKLQQNLFISAPTIS 259
>2x5f_A Aspartate_tyrosine_phenylalanine pyridoxal-5' phosphate-dependent
aminotransferase...; HET: PLP EPE; 1.80A {Staphylococcus
aureus}
Length = 430
Score = 25.4 bits (56), Expect = 4.9
Identities = 4/25 (16%), Positives = 10/25 (40%)
Query: 89 DNTAPIDIQMTRITQYGISSPPTVA 113
++ ++ + + ISS P
Sbjct: 291 TTKEVLEAKVKGLIRSNISSGPLPT 315
>3nra_A Aspartate aminotransferase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: LLP; 2.15A {Rhodobacter sphaeroides}
Length = 407
Score = 25.2 bits (56), Expect = 5.3
Identities = 2/24 (8%), Positives = 6/24 (25%), Gaps = 2/24 (8%)
Query: 92 APIDI--QMTRITQYGISSPPTVA 113
I +M ++ +
Sbjct: 267 GSRAIIARMEKLQAIVSLRAAGYS 290
>1qp8_A Formate dehydrogenase; oxidoreductase; HET: NDP; 2.80A
{Pyrobaculum aerophilum} SCOP: c.2.1.4 c.23.12.1
Length = 303
Score = 25.3 bits (56), Expect = 5.6
Identities = 6/31 (19%), Positives = 14/31 (45%)
Query: 10 ASLADADNVIPRQLTPEILSAFEGVRFIAQH 40
L + + + ++T E L+ ++FI
Sbjct: 27 GDLGNVEAALVSRITAEELAKMPRLKFIQVV 57
>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated
sodium-selective ION C membrane, metal transport; HET:
PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 3rw0_A*
Length = 285
Score = 25.1 bits (55), Expect = 6.7
Identities = 3/29 (10%), Positives = 13/29 (44%)
Query: 47 DNEIVEDWKYVSMVLDRFFLCVFTAACVL 75
++ + + + ++ + +FT +L
Sbjct: 52 SKTFMQSFGVYTTLFNQIVITIFTIEIIL 80
>2lck_A Mitochondrial uncoupling protein 2; membrane protein, proton
translocator, mitochondrial carrier transport protein,
structural genomics; NMR {Mus musculus}
Length = 303
Score = 25.0 bits (55), Expect = 8.3
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 8/37 (21%)
Query: 65 FLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 101
C FT+A G C + +P+D+ TR
Sbjct: 202 LPCHFTSAFGAGFCTTVI--------ASPVDVVKTRY 230
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 0.138 0.423
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,788,914
Number of extensions: 94909
Number of successful extensions: 347
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 35
Length of query: 116
Length of database: 6,701,793
Length adjustment: 79
Effective length of query: 37
Effective length of database: 4,496,034
Effective search space: 166353258
Effective search space used: 166353258
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 (21.6 bits)
S2: 51 (23.4 bits)