RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2801
(126 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 = 76.4 bits (187), Expect = 1e-17
Identities = 34/112 (30%), Positives = 53/112 (47%), Gaps = 8/112 (7%)
Query: 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMR 68
+ C+QFSRGV+++ G S +T S+ T + FITP FP + G + I MR
Sbjct: 52 AFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFP------TDGTHPFVIQMR 105
Query: 69 PDYHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVWN 120
PD A++ ++YY W Y+YD + L +K ++ N
Sbjct: 106 PDLKGALLSLIEYYQWDKFAYLYD--SDRGLSTLQAVLDSAAEKKWQVTAIN 155
>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane,
transport protein; HET: NAG BMA MAN; 2.50A {Rattus
norvegicus}
Length = 384
Score = 70.9 bits (173), Expect = 9e-16
Identities = 24/110 (21%), Positives = 48/110 (43%), Gaps = 8/110 (7%)
Query: 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMR 68
C+QFS+GV+++ G + + S+ + FITP FP + + +R
Sbjct: 59 RFCSQFSKGVYAIFGFYERRTVNMLTSFCGALHVCFITPSFP------VDTSNQFVLQLR 112
Query: 69 PDYHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISV 118
P+ +A+I + +Y W+ +Y+YD + L + ++
Sbjct: 113 PELQEALISIIDHYKWQTFVYIYD--ADRGLSVLQRVLDTAAEKNWQVTA 160
>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 = 69.8 bits (170), Expect = 2e-15
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 6/91 (6%)
Query: 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMR 68
+ C+QFSRGV+++ G S +T S+ T + FITP FP + G + I MR
Sbjct: 52 AFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFP------TDGTHPFVIQMR 105
Query: 69 PDYHQAIIDTVKYYGWKNIIYMYDSHDEMFY 99
PD A++ ++YY W Y+YDS +
Sbjct: 106 PDLKGALLSLIEYYQWDKFAYLYDSDRGLST 136
>3o21_A Glutamate receptor 3; periplasmatic binding protein,
oligomerization, membrane, TR protein; HET: NAG; 2.20A
{Rattus norvegicus} PDB: 3p3w_A
Length = 389
Score = 65.2 bits (158), Expect = 8e-14
Identities = 28/108 (25%), Positives = 46/108 (42%), Gaps = 8/108 (7%)
Query: 11 CNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD 70
C+QFSRGV+++ G S +T S+ F+TP FP + + I MRP
Sbjct: 63 CSQFSRGVYAIFGFYDQMSMNTLTSFCGALHTSFVTPSFPT------DADVQFVIQMRPA 116
Query: 71 YHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISV 118
AI+ + YY W+ +Y+YD+ + ++
Sbjct: 117 LKGAILSLLSYYKWEKFVYLYDTERGFS--VLQAIMEAAVQNNWQVTA 162
>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 = 65.1 bits (158), Expect = 9e-14
Identities = 26/117 (22%), Positives = 47/117 (40%), Gaps = 8/117 (6%)
Query: 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMR 68
C+Q S GV ++ G S + S N +P I + S + +S+
Sbjct: 63 KACDQLSLGVAAIFGPSHSSSANAVQSICNALGVPHIQTRWKH---QVSDNKDSFYVSLY 119
Query: 69 PDYH---QAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVWNRN 122
PD+ +AI+D V+++ WK + +YD D E ++ L + +
Sbjct: 120 PDFSSLSRAILDLVQFFKWKTVTVVYD--DSTGLIRLQELIKAPSRYNLRLKIRQLP 174
>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 = 52.9 bits (126), Expect = 2e-09
Identities = 25/118 (21%), Positives = 44/118 (37%), Gaps = 8/118 (6%)
Query: 9 SVCNQFSRGVFSMLG-AVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISM 67
++C +GV S+LG + SP S T ++P I E F ++S+
Sbjct: 62 TMCQILPKGVVSVLGPSSSPASASTVSHICGEKEIPHIKVGPEETPRLQYLRF--ASVSL 119
Query: 68 RP---DYHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVWNRN 122
P D A+ +K + + + + E +R F K +SV +
Sbjct: 120 YPSNEDVSLAVSRILKSFNYPSASLICA--KAECLLRLEELVRGFLISKETLSVRMLD 175
>3qel_B Glutamate [NMDA] receptor subunit epsilon-2; ION channel,
allosteric modulation, phenylethanolamine,
N-glycosylation, extracellular; HET: NAG BMA MAN FUC
QEL; 2.60A {Rattus norvegicus} PDB: 3qem_B* 3jpw_A*
3jpy_A*
Length = 364
Score = 49.4 bits (117), Expect = 3e-08
Identities = 10/97 (10%), Positives = 24/97 (24%), Gaps = 7/97 (7%)
Query: 6 FFVSVCNQF-SRGVFSMLGAVSPDSFDT---FHSYSNTFQMPFITPWFPEKVLAPSSGFL 61
+C+ R + ++ A D S P + ++
Sbjct: 51 IITRICDLMSDRKIQGVVFADDTDQEAIAQILDFISAQTLTPILGIHGGSSMIMADKDES 110
Query: 62 DYAISMRP-DYHQ--AIIDTVKYYGWKNIIYMYDSHD 95
P Q +++ ++ Y W +
Sbjct: 111 SMFFQFGPSIEQQASVMLNIMEEYDWYIFSIVTTYFP 147
>1jdp_A NPR-C, atrial natriuretic peptide clearance receptor;
hormone-receptor complex, natriuretic peptide receptor,
ALLO activation, signaling protein; HET: NDG NAG; 2.00A
{Homo sapiens} SCOP: c.93.1.1 PDB: 1jdn_A* 1yk0_A*
1yk1_A*
Length = 441
Score = 33.9 bits (77), Expect = 0.008
Identities = 9/93 (9%), Positives = 26/93 (27%), Gaps = 3/93 (3%)
Query: 6 FFVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAI 65
V +LG V + ++ + +P ++ +
Sbjct: 73 LVDRVAAARGAKPDLILGPVCEYAAAPVARLASHWDLPMLSAGALAAGFQHKDSEYSHLT 132
Query: 66 SMRPDYHQ---AIIDTVKYYGWKNIIYMYDSHD 95
+ P Y + ++ +++ W +Y
Sbjct: 133 RVAPAYAKMGEMMLALFRHHHWSRAALVYSDDK 165
>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 = 34.3 bits (78), Expect = 0.008
Identities = 21/131 (16%), Positives = 35/131 (26%), Gaps = 45/131 (34%)
Query: 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYA-ISMRP------- 69
L + + D ++ I W P +L IS P
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLN---ILEWLENPSNTPDKDYLLSIPISC-PLIGVIQL 246
Query: 70 -DYHQAIIDTVKYYGW----------------KNI-----IYMYDSHDEMFYEGSPEFLR 107
Y + T K G+ + + I DS + F+ + +
Sbjct: 247 AHY----VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES-FFVSVRKAIT 301
Query: 108 V-F-----CHE 112
V F C+E
Sbjct: 302 VLFFIGVRCYE 312
>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 = 33.6 bits (76), Expect = 0.012
Identities = 13/95 (13%), Positives = 30/95 (31%), Gaps = 8/95 (8%)
Query: 9 SVCNQFSRG------VFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLD 62
SVC V + + +++P I + + S L
Sbjct: 56 SVCEDLISSQVYAILVSHPPAPTDHLTPTPISYTAGFYRIPVIGLTTRMSIYSDKSIHLS 115
Query: 63 YAISMRPDYHQ--AIIDTVKYYGWKNIIYMYDSHD 95
+ ++ P HQ + ++ + W ++I +
Sbjct: 116 FLRTVPPYSHQALVWFEMMRLFNWNHVILIVSDDH 150
>1dp4_A Atrial natriuretic peptide receptor A; periplasmic binding protein
fold, dimer, hormone/growth FACT receptor, lyase
complex; HET: NAG; 2.00A {Rattus norvegicus} SCOP:
c.93.1.1 PDB: 1t34_A* 3a3k_A*
Length = 435
Score = 32.4 bits (73), Expect = 0.027
Identities = 10/95 (10%), Positives = 28/95 (29%), Gaps = 3/95 (3%)
Query: 14 FSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQ 73
+ LG S ++ +++P +T P + + +
Sbjct: 74 WEHSPAVFLGPGCVYSAAPVGRFTAHWRVPLLTAGAPALGIGVKDEYALTTRTGPSHVKL 133
Query: 74 --AIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFL 106
+ + GW++ + D + + F+
Sbjct: 134 GDFVTALHRRLGWEHQALVL-YADRLGDDRPCFFI 167
>3lkb_A Probable branched-chain amino acid ABC transporter, amino acid
binding protein; branched amino acid, PSI-II, NYSGXRC,
structural genomics; 2.40A {Thermus thermophilus}
Length = 392
Score = 29.7 bits (67), Expect = 0.24
Identities = 9/108 (8%), Positives = 30/108 (27%), Gaps = 14/108 (12%)
Query: 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAII 76
+ L + + ++P I +++ P DY Y + ++
Sbjct: 75 KIPVFLSYATGANLQLKPLIQEL-RIPTIPASMHIELIDPP--NNDYIFLPTTSYSEQVV 131
Query: 77 DTVKY----YGWKNIIYMYDSHDEMFY--EGSPEFLRVFCHEKLNISV 118
++Y + + + + + +L + +
Sbjct: 132 ALLEYIAREKKGAKVALVVHPSP---FGRAPVEDARKAA--RELGLQI 174
>4f11_A Gamma-aminobutyric acid type B receptor subunit 2; venus flytrap
module, G-protein coupled receptor, signaling; 2.38A
{Homo sapiens} PDB: 4f12_A*
Length = 433
Score = 29.5 bits (66), Expect = 0.27
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 69 PDYHQ--AIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNIS 117
D AI+ +K+Y WK + + + F E + V E + IS
Sbjct: 137 SDNAVNPAILKLLKHYQWKRVGTLT-QDVQRFSEVRNDLTGVLYGEDIEIS 186
>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 = 29.4 bits (65), Expect = 0.27
Identities = 16/88 (18%), Positives = 30/88 (34%), Gaps = 20/88 (22%)
Query: 14 FSRGVFS------MLGAVSPDS-----FDTFHSY-SNTFQMPFITPWFPEKVLAPSSGFL 61
+ + S ++ + S F T S Q F E+VL + FL
Sbjct: 41 MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK------FVEEVLRINYKFL 94
Query: 62 DYAISMRPDYHQAIIDTVKYYGWKNIIY 89
++ + Q + T Y ++ +Y
Sbjct: 95 --MSPIKTEQRQPSMMTRMYIEQRDRLY 120
>1us2_A Xylanase10C, endo-beta-1,4-xylanase; hydrolase, carbohydrate
binding module, xylan degradation; HET: XYP; 1.85A
{Cellvibrio japonicus} SCOP: b.18.1.11 c.1.8.3 PDB:
1us3_A
Length = 530
Score = 25.4 bits (55), Expect = 7.8
Identities = 9/49 (18%), Positives = 15/49 (30%), Gaps = 6/49 (12%)
Query: 75 IIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVWNRNL 123
I V +Y K + +D + + SP R S +
Sbjct: 280 ITTIVDHYEAKGNLVSWDVVNAAIDDNSPANFR------TTDSAFYVKS 322
>1muk_A Minor core protein lambda 3; single subunit polymerase fold,
fingers, PALM, thumb, right hand configuration, viral
protein; 2.50A {Reovirus SP} SCOP: e.8.1.4 PDB: 1mwh_A*
1n1h_A* 1n35_A* 1n38_A* 1uon_A* 2cse_1
Length = 1267
Score = 25.1 bits (54), Expect = 8.4
Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 1 MIQNVFFVSVCNQFSRG-VFSMLGAVSPD---SFDTFHSYSNTFQMP-FITPWFPEKVLA 55
+ + F V + FS G F+ + P + T H+ +N+ M F+T W PE
Sbjct: 654 LYKRGFSYRVNDSFSPGNDFTHMTTTFPSGSTATSTEHTANNSTMMETFLTVWGPEHTDD 713
Query: 56 PSSGFLDYAISMRPDY 71
P L +++++ +Y
Sbjct: 714 PDVLRLMKSLTIQRNY 729
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
0.327 0.140 0.462
Gapped
Lambda K H
0.267 0.0597 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,045,739
Number of extensions: 112054
Number of successful extensions: 395
Number of sequences better than 10.0: 1
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 26
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
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: 51 (23.7 bits)