RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2802
(74 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 = 85.6 bits (211), Expect = 1e-21
Identities = 41/74 (55%), Positives = 53/74 (71%)
Query: 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDV 60
M+ +M+ + VFV + EGV +VR S GKYA+L+ES N+Y R+PCDTMKVG NLD
Sbjct: 661 MWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDS 720
Query: 61 KGFGVATPIGSPLK 74
KG+G+ATP GS L
Sbjct: 721 KGYGIATPKGSSLG 734
>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial
agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane
protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP:
c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A*
1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A*
1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A
1my0_A ...
Length = 263
Score = 69.3 bits (169), Expect = 3e-16
Identities = 41/74 (55%), Positives = 53/74 (71%)
Query: 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDV 60
M+ +M+ + VFV + EGV +VR S GKYA+L+ES N+Y R+PCDTMKVG NLD
Sbjct: 158 MWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDS 217
Query: 61 KGFGVATPIGSPLK 74
KG+G+ATP GS L
Sbjct: 218 KGYGIATPKGSSLG 231
>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell
junction, cell membrane, glycoprotein, ION transport,
ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus
norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A*
3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A*
2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A*
2i0c_A* ...
Length = 259
Score = 63.1 bits (153), Expect = 4e-14
Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDV 60
M+ FM + V V S EG+ +V + YAFL+ES ++ ++ C+ ++G +D
Sbjct: 158 MWAFMSSRRQSVLVKSNEEGIQRVLT--SDYAFLMESTTIEF-VTQRNCNLTQIGGLIDS 214
Query: 61 KGFGVATPIGSPLK 74
KG+GV TP+GSP +
Sbjct: 215 KGYGVGTPMGSPYR 228
>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor,
membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus
norvegicus} SCOP: c.94.1.1
Length = 312
Score = 63.3 bits (153), Expect = 7e-14
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MYYFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDV 60
M+ FM + V V S EG+ +V + YAFL+ES ++ R C+ ++G +D
Sbjct: 192 MWAFMSSRRQSVLVKSNEEGIQRVLT--SDYAFLMESTTIEFVTQR-NCNLTQIGGLIDS 248
Query: 61 KGFGVATPIGSPLK 74
KG+GV TP+GSP +
Sbjct: 249 KGYGVGTPMGSPYR 262
>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane,
ionotropic glutamate receptors, transmembrane, membrane
protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A
Length = 265
Score = 55.8 bits (134), Expect = 2e-11
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 4/76 (5%)
Query: 1 MYYFMQMHKDKVF-VSSETEGVNKVRSSHGKYAFLIESPRNDYENARQP-CDTMKVGNNL 58
M+ + V G+ KV+ G YAF+ ++ +Y P C VGN +
Sbjct: 160 MWRMINRSNGSENNVLESQAGIQKVKY--GNYAFVWDAAVLEYVAINDPDCSFYTVGNTV 217
Query: 59 DVKGFGVATPIGSPLK 74
+G+G+A GSP +
Sbjct: 218 ADRGYGIALQHGSPYR 233
>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor,
NR1, ligand binding protein; 1.35A {Rattus norvegicus}
SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A*
1pb8_A 1pb9_A
Length = 292
Score = 40.8 bits (95), Expect = 7e-06
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 5 MQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFG 64
M H +K S E + VR + +AF+ +S ++E A Q CD + G GFG
Sbjct: 194 MYRHMEKHNYESAAEAIQAVRDNKL-HAFIWDSAVLEFE-ASQKCDLVTTGELFFRSGFG 251
Query: 65 VATPIGSPLK 74
+ SP K
Sbjct: 252 IGMRKDSPWK 261
>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell
junction, glycoprotein, ION transport channel,
magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A
2rca_A 2rcb_A
Length = 294
Score = 31.2 bits (70), Expect = 0.017
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 5 MQMHKDKVFVSSETEGVNKVRSSHGKY-AFLIESPRNDYENARQP-CDTMKVGNNLDVKG 62
M + + V + +GV +++ K AF+++ DYE + C + VG ++G
Sbjct: 192 MHEYMRRYNVPATPDGVQYLKNDPEKLDAFIMDKALLDYEVSIDADCKLLTVGKPFAIEG 251
Query: 63 FGVATPIGSPLK 74
+G+ P SPL
Sbjct: 252 YGIGLPPNSPLT 263
>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 = 0.37
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 23/51 (45%)
Query: 17 ETEGVNKVRSSHGKYAFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVAT 67
E + + K+++S YA ++A P L +K AT
Sbjct: 18 EKQALKKLQASLKLYA-----D----DSA--PA--------LAIK----AT 45
>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 = 26.6 bits (58), Expect = 0.74
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 7/29 (24%)
Query: 24 VRS---SHGK--YAFLIESPRNDYENARQ 47
R SHG + L+ P + A Q
Sbjct: 6 TRPLTLSHGSLEHVLLV--PTASFFIASQ 32
>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor
nmdar2A; protein-ligand complex, metal
transport,membrane protein; HET: GLU; 1.70A {Rattus
norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A*
3oem_A* 3oek_A*
Length = 284
Score = 26.1 bits (57), Expect = 1.1
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 6/74 (8%)
Query: 5 MQMHKDKVFVSSETEGVNKVRSSHGKY-AFLIESPRNDYENARQPCDTMKV---GNNLDV 60
M + + + + +++ GK AF+ ++ +Y+ R + G
Sbjct: 183 MHQYMTRFNQRGVEDALVSLKT--GKLDAFIYDAAVLNYKAGRDEGCKLVTIGSGYIFAT 240
Query: 61 KGFGVATPIGSPLK 74
G+G+A GSP K
Sbjct: 241 TGYGIALQKGSPWK 254
>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic,
transport protein; 1.90A {Salmonella enterica} PDB:
3r39_A 4f3s_A
Length = 259
Score = 25.4 bits (56), Expect = 2.0
Identities = 9/43 (20%), Positives = 15/43 (34%)
Query: 32 AFLIESPRNDYENARQPCDTMKVGNNLDVKGFGVATPIGSPLK 74
IE P ++ +V G+A GSP++
Sbjct: 187 LAFIEEPVYFTFKNKKKMPIESRYVFKNVDQLGIAFKKGSPVR 229
>1k0e_A P-aminobenzoate synthase component I; aminodeoxychorismate
synthase, chorismate, glutamine, tryptophan, PABA
synthase, lyase; HET: TRP; 2.00A {Escherichia coli}
SCOP: d.161.1.1 PDB: 1k0g_A*
Length = 453
Score = 24.0 bits (53), Expect = 5.7
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 8/56 (14%)
Query: 27 SHGKYAFLIESPRNDYENAR------QPCDTMKV-GNNLDVKGFGVATPI-GSPLK 74
SH +A L+ S D+ +R +P T+ G V T PL+
Sbjct: 26 SHLPWAMLLHSGYADHPYSRFDIVVAEPICTLTTFGKETVVSESEKRTTTTDDPLQ 81
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 23.9 bits (52), Expect = 7.3
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 3 YFMQMHKDKVFVSSETEGVNKVRSSHGKYAFLIESP 38
+ + + D VF + E E V+ SHG Y L+ES
Sbjct: 153 FAVLNNADLVFPTIEGENGEIVQLSHGVYGQLLEST 188
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
0.316 0.134 0.394
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,028,879
Number of extensions: 43948
Number of successful extensions: 66
Number of sequences better than 10.0: 1
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 15
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.5 bits)