RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2313
(62 letters)
>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 = 61.7 bits (149), Expect = 1e-13
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+DLL ++ L F + + +V DG YG + N +WNG+V +L+ A ++ A L+++
Sbjct: 46 IDLLRELSTILGFTYEIRLVEDGKYGAQDDVNG--QWNGMVRELIDHKADLAVAPLAITY 103
Query: 61 TR 62
R
Sbjct: 104 VR 105
>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 = 53.3 bits (127), Expect = 2e-10
Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+DL IA+ F + L IV DG YG + + WNG+VG+LV G A ++ A L+++
Sbjct: 417 VDLAAEIAKHCGFKYKLTIVGDGKYGARDADT--KIWNGMVGELVYGKADIAIAPLTITL 474
Query: 61 TR 62
R
Sbjct: 475 VR 476
>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 = 52.7 bits (126), Expect = 2e-10
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+DLL ++ L F + + +V DG YG + N +WNG+V +L+ A ++ A L+++
Sbjct: 37 IDLLRELSTHLGFTYEIRLVEDGKYGAQDDVNG--QWNGMVRELIDHKADLAVAPLAITY 94
Query: 61 TR 62
R
Sbjct: 95 VR 96
>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 = 49.6 bits (118), Expect = 2e-09
Identities = 25/64 (39%), Positives = 45/64 (70%), Gaps = 2/64 (3%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDK--WNGVVGDLVTGTAHMSFAALSV 58
+DLL +A+ + F + +++VADG +GT+ R N +K WNG++G+L++G A M A L++
Sbjct: 68 IDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMGELLSGQADMIVAPLTI 127
Query: 59 SSTR 62
++ R
Sbjct: 128 NNER 131
>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 = 49.2 bits (117), Expect = 3e-09
Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+DL IA+ F + L IV DG YG + + + WNG+VG+LV G A ++ A L+++
Sbjct: 37 VDLAAEIAKHCGFKYKLTIVGDGKYGARDADTK--IWNGMVGELVYGKADIAIAPLTITL 94
Query: 61 TR 62
R
Sbjct: 95 VR 96
>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 = 49.3 bits (117), Expect = 4e-09
Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 3/62 (4%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+D+L+ ++ L F++ +Y+ D YG+ + WNG+VG+LV A + +AL+++
Sbjct: 34 IDVLDALSNYLGFNYEIYVAPDHKYGS---PQEDGTWNGLVGELVFKRADIGISALTITP 90
Query: 61 TR 62
R
Sbjct: 91 DR 92
>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 = 45.8 bits (108), Expect = 6e-08
Identities = 28/62 (45%), Positives = 43/62 (69%), Gaps = 4/62 (6%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+DLLE +A+++ FDF LYIV DG YG + W G+VGDL++GTA+M+ + S+++
Sbjct: 73 IDLLEQLAEDMNFDFDLYIVGDGKYG----AWKNGHWTGLVGDLLSGTANMAVTSFSINT 128
Query: 61 TR 62
R
Sbjct: 129 AR 130
>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 = 43.1 bits (101), Expect = 6e-07
Identities = 18/62 (29%), Positives = 40/62 (64%), Gaps = 4/62 (6%)
Query: 1 MDLLENIAQELEFDFHLYIVADGLYGTKVRENQKDKWNGVVGDLVTGTAHMSFAALSVSS 60
+D+L+ +++ ++F + LY+V +G +G K + WNG++G++V A M+ +L+++
Sbjct: 62 IDILKKLSRTVKFTYDLYLVTNGKHGKK----VNNVWNGMIGEVVYQRAVMAVGSLTINE 117
Query: 61 TR 62
R
Sbjct: 118 ER 119
>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 = 28.5 bits (63), Expect = 0.100
Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 23/55 (41%)
Query: 1 MDLLEN--IAQEL--EFDFHLY---------IVAD----------GLYGTKVREN 32
MDL + AQ++ D H IV + G G ++REN
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
>3edn_A Phenazine biosynthesis protein, PHZF family; diaminopimelate
epimerase-like fold, alpha and beta protein class,
structural genomics; HET: MSE; 1.50A {Bacillus
anthracis}
Length = 299
Score = 23.8 bits (52), Expect = 4.3
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 36 KWNGVVGDLVTGTAHMSFAA 55
+ G + D VTGTA A
Sbjct: 219 AYAGTIEDPVTGTASGVMGA 238
>1s7j_A Phenazine biosynthesis protein PHZF family; bacteria, structural
PSI, protein structure initiative; 2.30A {Enterococcus
faecalis} SCOP: d.21.1.2
Length = 262
Score = 23.7 bits (52), Expect = 4.8
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 37 WNGVVGDLVTGTAH 50
+ D V G+AH
Sbjct: 194 KLRINEDPVCGSAH 207
>3mxl_A Nitrososynthase; flavin monooxygenase, acyl-COA dehydrogenas
oxidoreductase; 3.15A {Micromonospora carbonacea}
Length = 395
Score = 23.0 bits (50), Expect = 9.4
Identities = 5/30 (16%), Positives = 11/30 (36%), Gaps = 3/30 (10%)
Query: 25 YGTKVRENQKDKWNGVVGDLVTGTAHMSFA 54
+GT ++ + + G A + A
Sbjct: 107 HGTPPVRAMAERL---LRAMAEGEAAVCGA 133
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
0.318 0.134 0.385
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 937,621
Number of extensions: 40524
Number of successful extensions: 79
Number of sequences better than 10.0: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 12
Length of query: 62
Length of database: 6,701,793
Length adjustment: 33
Effective length of query: 29
Effective length of database: 5,780,400
Effective search space: 167631600
Effective search space used: 167631600
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 (21.7 bits)
S2: 51 (23.3 bits)