RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2803
(141 letters)
>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell
membrane, glycoprotein, transport, membrane,
postsynaptic cell membrane, editing; HET: ZK1 NAG BMA;
3.60A {Rattus norvegicus}
Length = 823
Score = 45.2 bits (106), Expect = 2e-06
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 14 HHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRFELQAYVDVINTADAFKLSR 68
+ I +G +F +G D+ SAF+ M+ + + F L ++D + A++F ++
Sbjct: 1 NSIQIGGLFPRGADQEYSAFRVGMVQFSTS----EFRLTPHIDNLEVANSFAVTN 51
>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, cell
CELL membrane, endoplasmic reticulum, glycoprotein, ION
TRA ionic channel; HET: NAG BMA; 1.75A {Rattus
norvegicus} PDB: 3h5v_A* 3h5w_A 3o2j_A* 2wjw_A* 2wjx_A
3n6v_A
Length = 376
Score = 44.4 bits (104), Expect = 3e-06
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 14 HHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRFELQAYVDVINTADAFKLSR 68
+ I +G +F +G D+ SAF+ M+ + + F L ++D + A++F ++
Sbjct: 1 NSIQIGGLFPRGADQEYSAFRVGMVQFSTS----EFRLTPHIDNLEVANSFAVTN 51
>3o21_A Glutamate receptor 3; periplasmatic binding protein,
oligomerization, membrane, TR protein; HET: NAG; 2.20A
{Rattus norvegicus} PDB: 3p3w_A
Length = 389
Score = 43.6 bits (102), Expect = 5e-06
Identities = 17/63 (26%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 14 HHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTT--RRFELQAYVDVINTADAFKLSRLSI 71
+ I +G +F + T + SAF+FA+ +N N T + F L +VD ++++++F ++
Sbjct: 4 NTISIGGLFMRNTVQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFC 63
Query: 72 RKM 74
+
Sbjct: 64 SQF 66
>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 = 40.0 bits (93), Expect = 1e-04
Identities = 32/169 (18%), Positives = 52/169 (30%), Gaps = 56/169 (33%)
Query: 18 LGAIFEQGTDEVQSAFKFAMLT---------HNQNTTT--------RRFELQAYVD---- 56
+ +F G A+ L +N+ + + ++Q YV+
Sbjct: 300 ITVLFFIGV-RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS 358
Query: 57 -----------VINTADAFKLS--RLSIRKMLVTNLMSLHSSPNL----INFMTRLGFEP 99
++N A +S S+ L L + L I F R +
Sbjct: 359 HLPAGKQVEISLVNGAKNLVVSGPPQSLYG-LNLTLRKAKAPSGLDQSRIPFSER---KL 414
Query: 100 KFTESFG-VFCPEPQSKFDLSLILR--QSIIMVDLK----LFSQSDCII 141
KF+ F V P F S +L +I DL F+ D I
Sbjct: 415 KFSNRFLPVASP-----FH-SHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Score = 26.9 bits (59), Expect = 2.9
Identities = 5/30 (16%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 51 LQAYVDVINTADAFKLSRLSIRKMLVTNLM 80
L + DV++ ++ + R M + +
Sbjct: 1770 LASLADVMSIESLVEV--VFYRGMTMQVAV 1797
>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane,
transport protein; HET: NAG BMA MAN; 2.50A {Rattus
norvegicus}
Length = 384
Score = 39.0 bits (90), Expect = 2e-04
Identities = 12/61 (19%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 14 HHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRFELQAYVDVINTADAFKLSRLSIRK 73
++I +G +F + +AF+FA+ + L +D++N +D+F+++ +
Sbjct: 9 NNIQIGGLFPNQQSQEHAAFRFALSQLTEPPK-----LLPQIDIVNISDSFEMTYRFCSQ 63
Query: 74 M 74
Sbjct: 64 F 64
>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 = 38.7 bits (89), Expect = 3e-04
Identities = 30/187 (16%), Positives = 53/187 (28%), Gaps = 64/187 (34%)
Query: 5 KEMLISLVVHHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRF--------------- 49
K +L + HI + F L Q ++F
Sbjct: 43 KSILSKEEIDHI-----IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97
Query: 50 ----------ELQAYVD----VINTADAFK---LSRLSIRKMLVTNLMSLHSSPNLINF- 91
+ Y++ + N F +SRL L L+ L + N++
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 92 MTRLG-------------FEPKFTESFGVF------CPEPQSKFDLSLILRQSIIM-VDL 131
+ G + K F +F C P + L + Q ++ +D
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKM--DFKIFWLNLKNCNSP----ETVLEMLQKLLYQIDP 211
Query: 132 KLFSQSD 138
S+SD
Sbjct: 212 NWTSRSD 218
>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein
glycoprotein, cell junction, cell membrane,
glycoprotein, ION transport; HET: NAG TLA; 2.70A
{Rattus norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A*
3olz_A*
Length = 395
Score = 34.7 bits (79), Expect = 0.006
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 14 HHIGLGAIFEQGTDEVQS----AFKFAMLTHNQNTT-TRRFELQAYVDVINTADAFKLSR 68
H + G IFE AF+FA+ T N+N T L IN D+F+ S+
Sbjct: 3 HVLRFGGIFEYVESGPMGAEELAFRFAVNTINRNRTLLPNTTLTYDTQKINLYDSFEASK 62
Query: 69 LSIRKM 74
+ ++
Sbjct: 63 KACDQL 68
>3om0_A Glutamate receptor, ionotropic kainate 5; membrane protein, ION
channel; HET: NAG BMA GOL; 1.40A {Rattus norvegicus}
PDB: 3om1_A* 3qlu_A* 3qlv_A
Length = 393
Score = 29.4 bits (65), Expect = 0.41
Identities = 12/91 (13%), Positives = 32/91 (35%), Gaps = 6/91 (6%)
Query: 12 VVHHIGLGAIFEQGT---DEVQSAFKFAMLTHNQNTTT-RRFELQAYVDVINTADAFKLS 67
V+ + + AI + T + A A N + ++ + + ++ +
Sbjct: 1 VLSSLRMAAILDDQTVCGRGERLALALAREQINGIIEVPAKARVEVDIFELQRDSQYETT 60
Query: 68 R--LSIRKMLVTNLMSLHSSPNLINFMTRLG 96
I V +++ SSP + ++ +
Sbjct: 61 DTMCQILPKGVVSVLGPSSSPASASTVSHIC 91
>3qek_A NMDA glutamate receptor subunit; amino terminal domain, ION
channel, NMDA receptor, allosteri modulation,
phenylethanolamine, polyamine; HET: NAG BMA; 2.00A
{Xenopus laevis} PDB: 3qel_A* 3qem_A* 3q41_A*
Length = 384
Score = 28.9 bits (64), Expect = 0.53
Identities = 12/63 (19%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 16 IGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRFELQAYVDVINTADAFKLSRLSIRKML 75
+ +GA+ T + + F+ A+ N+ TR+ +LQ V + +A +++ ++
Sbjct: 6 VNIGAVLS--TKKHEQIFREAVNQANKRHFTRKIQLQ-ATSVTHRPNAIQMALSVCEDLI 62
Query: 76 VTN 78
+
Sbjct: 63 SSQ 65
>3iyl_X VP3; non-enveloped virus, membrane penetration protein, autocleav
myristol group, icosahedral virus; HET: MYR; 3.30A
{Grass carp reovirus} PDB: 3k1q_C 3k1q_B
Length = 1214
Score = 27.5 bits (60), Expect = 1.7
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 50 ELQAYVDVINTADAFKLSRLSIRKMLVTNLMSLHSSPNLI 89
E+ A V+ + DA L IR+ + L S+H P I
Sbjct: 380 EVSAMVECMELCDALTLH---IRETYIMLLRSMHQDPTQI 416
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 1.7
Identities = 4/29 (13%), Positives = 12/29 (41%), Gaps = 8/29 (27%)
Query: 100 KFTESFGVFCPE--PQSKFDLSLILRQSI 126
K S ++ + P +L ++ ++
Sbjct: 24 KLQASLKLYADDSAP------ALAIKATM 46
>1ej6_B Lambda1; icosahedral, non-equivalence, dsRNA virus, methylase,
methyltransferase, guanylyltransferase, zinc finger,
icosahedral virus; 3.60A {Reovirus SP} SCOP: i.7.1.1
PDB: 2cse_V
Length = 1275
Score = 27.5 bits (60), Expect = 1.9
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 50 ELQAYVDVINTADAFKLSRLSIRKMLVTNLMSLHSSPNLI 89
+ +VDV T+DA +S IR + L ++ +P I
Sbjct: 443 AMSEWVDVFETSDALTVS---IRGRWMARLARMNINPTEI 479
>3v0a_B NTNH; botulinum neurotoxin, toxin, neurotoxin associated protein,
progenitor toxin complex, VHH bound interlocked complex;
HET: MES; 2.70A {Clostridium botulinum} PDB: 3v0b_B
Length = 1196
Score = 26.0 bits (56), Expect = 5.3
Identities = 18/123 (14%), Positives = 34/123 (27%), Gaps = 16/123 (13%)
Query: 6 EMLISLVVHHIGLGAIFEQGTDEVQSAFKFAMLTHNQNTTTRRFELQAYVDVINTADAFK 65
E L+SL+ I + G + F + +
Sbjct: 98 EKLLSLISTAIPFPYGYIGGGYYAPNMITFGSAPKSNKKLNSLISSTIPFPYAGYRETNY 157
Query: 66 LSRLSIRKMLVTNLMSLHSSPNLINF----------------MTRLGFEPKFTESFGVFC 109
LS + +N++ N++ MT + F+P T + F
Sbjct: 158 LSSEDNKSFYASNIVIFGPGANIVENNTVFYKKEDAENGMGTMTEIWFQPFLTYKYDEFY 217
Query: 110 PEP 112
+P
Sbjct: 218 IDP 220
>3dby_A Uncharacterized protein; structural genomics, unknown function,
PSI-2, protein struct initiative; 2.10A {Bacillus
cereus} SCOP: a.29.13.1 a.29.13.1
Length = 269
Score = 26.0 bits (57), Expect = 5.4
Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 26 TDEVQSAFKFAMLTHNQNTTTRRFELQAYV-DVINTADAFKLSRLSIRKMLVTNLMSLHS 84
++++ A F N R L A+ + A + +L+I + + +++H
Sbjct: 38 KEDIKKATYFVETFTNLLNKVRNVNLMAFSKEAEQAAKEIRAFKLNIIQKQLEGKITIHF 97
Query: 85 SPNLINFMTR 94
+P IN M
Sbjct: 98 TPTFINHMVN 107
>2iyf_A OLED, oleandomycin glycosyltransferase; antibiotic resistance,
glycosylation, enzyme, macrolide, carbohydrate; HET: ERY
UDP; 1.7A {Streptomyces antibioticus}
Length = 430
Score = 25.5 bits (56), Expect = 6.8
Identities = 10/24 (41%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 2 VPQKEML--ISLVVHHIGLGAIFE 23
VPQ +L L V H G G E
Sbjct: 291 VPQLAILRQADLFVTHAGAGGSQE 314
>1jv1_A Glcnac1P uridyltransferase isoform 1: AGX1; nucleotidyltransferase,
alternative splicing; HET: UD1; 1.90A {Homo sapiens}
SCOP: c.68.1.5 PDB: 1jv3_A* 1jvg_A* 1jvd_A* 1vm8_A*
Length = 505
Score = 25.5 bits (55), Expect = 9.3
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 8/42 (19%)
Query: 76 VTNLMSLHSSPNLINFMTRLGFEPKF--------TESFGVFC 109
V N++ + P I F + G + TE GV C
Sbjct: 252 VDNILVKVADPRFIGFCIQKGADCGAKVVEKTNPTEPVGVVC 293
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
0.326 0.137 0.389
Gapped
Lambda K H
0.267 0.0472 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,943,707
Number of extensions: 99490
Number of successful extensions: 282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 278
Number of HSP's successfully gapped: 20
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
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 (21.7 bits)
S2: 52 (24.4 bits)