RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12319
(161 letters)
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane protein,
transport protei; HET: LMT; 2.60A {Gloeobacter
violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A*
3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A*
3eam_A* 3ehz_A 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A 2xqa_A
...
Length = 321
Score = 37.6 bits (88), Expect = 8e-04
Identities = 10/41 (24%), Positives = 14/41 (34%)
Query: 106 VSREGYQFHINSVSKIDRVSRILFPASFGLLNLFYWISYIT 146
+ + I R SRI FP F L N+ +
Sbjct: 280 QHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFFG 320
Score = 27.2 bits (61), Expect = 2.2
Identities = 4/21 (19%), Positives = 8/21 (38%)
Query: 1 MSFFYCIATILEFAAVHYFTK 21
M + + ++E HY
Sbjct: 265 MIYLFYFVAVIEVTVQHYLKV 285
>3rhw_A Avermectin-sensitive glutamate-gated chloride CHA alpha; membrane
protein, transport protein, Cys-loop receptor, LIGA ION
channel, neurotransmitter receptor; HET: NAG IVM LMT
UND; 3.26A {Caenorhabditis elegans} PDB: 3ri5_A* 3ria_A*
3rif_A*
Length = 347
Score = 35.6 bits (82), Expect = 0.004
Identities = 11/39 (28%), Positives = 20/39 (51%)
Query: 106 VSREGYQFHINSVSKIDRVSRILFPASFGLLNLFYWISY 144
++ G + ++D +SR LFP F + N+ YW +
Sbjct: 300 IANAGTTEWNDISKRVDLISRALFPVLFFVFNILYWSRF 338
>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 = 35.6 bits (81), Expect = 0.005
Identities = 21/147 (14%), Positives = 49/147 (33%), Gaps = 40/147 (27%)
Query: 33 SDEIRVHPHPKSYVSEDEEDEQTNIHKIKVDYRVCSVYEIRTL-KVCPNIVDQLSTDEVN 91
+ H S V + ++ +I I ++ + + L + +IVD +
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELK-VKLENEYALHR---SIVDHYN----- 454
Query: 92 LVANEKYRKKREQEVSREGYQF-----HINSVSKIDRVS--RILF--------------- 129
+ + + Y + H+ ++ +R++ R++F
Sbjct: 455 --IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 130 --PASFGLLNLF----YWISYITDQEN 150
AS +LN ++ YI D +
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDP 539
>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 = 30.8 bits (69), Expect = 0.19
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 21/77 (27%)
Query: 29 FL-VSSDEIRVHP-HPKSYVSEDEEDEQTNIHKIKVDYRVCS----VY------EIRTLK 76
FL V+S P H + + ++ K V + VY ++R L
Sbjct: 420 FLPVAS------PFH-SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS 472
Query: 77 --VCPNIVDQLSTDEVN 91
+ IVD + V
Sbjct: 473 GSISERIVDCIIRLPVK 489
Score = 27.3 bits (60), Expect = 2.9
Identities = 24/150 (16%), Positives = 48/150 (32%), Gaps = 40/150 (26%)
Query: 23 GSGEIPFLVSS----------DE-IRVHPHPKSYVSEDEEDEQTNIHKI---------KV 62
GS E LV + ++ ++ P P + D+E T + V
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT-TPAELVGKFLGYVSSLV 72
Query: 63 DYRVCSVYEIRTLKVCPNIVDQ--LSTDEV-----NLVANEKYRKKREQEVSREGYQFHI 115
+ ++ + L +C + L +++ L+ + +E+ + I
Sbjct: 73 EPSKVGQFD-QVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 116 NSVSKIDRVSR-ILFPAS----------FG 134
+ D+ S LF A FG
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain,
third transmembrane domain, membrane protein; NMR {Homo
sapiens} SCOP: j.35.1.1
Length = 76
Score = 28.7 bits (64), Expect = 0.22
Identities = 5/21 (23%), Positives = 14/21 (66%)
Query: 1 MSFFYCIATILEFAAVHYFTK 21
+ + + +LE+AAV++ ++
Sbjct: 41 VCLLFVFSALLEYAAVNFVSR 61
>3rqw_A ELIC pentameric ligand gated ION channel from ERW chrysanthemi;
membrane, transport protein; HET: ACH MES; 2.91A
{Dickeya dadantii} PDB: 3rqu_A* 3uq4_A 3uq5_A 3uq7_A
2vl0_A 2yks_A
Length = 322
Score = 30.4 bits (69), Expect = 0.23
Identities = 5/23 (21%), Positives = 7/23 (30%)
Query: 1 MSFFYCIATILEFAAVHYFTKTG 23
+ A IL H+ G
Sbjct: 268 AGYGSIFAAILLIIFAHHRQANG 290
>2yvq_A Carbamoyl-phosphate synthase; conserved hypothetical protein,
structural genomics, NPPSFA; 1.98A {Homo sapiens}
Length = 143
Score = 27.9 bits (63), Expect = 0.85
Identities = 5/38 (13%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 58 HKIKVDYRVCSVYEIRTLKVCPNIVDQLSTDEVNLVAN 95
+ + V + +I + ++LV N
Sbjct: 66 NNVPAT-PVAWPSQEGQNPSLSSIRKLIRDGSIDLVIN 102
>1wjr_A KIAA1617 protein; MBT domain, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
protein binding; NMR {Homo sapiens} SCOP: b.34.9.3
Length = 127
Score = 27.2 bits (60), Expect = 1.7
Identities = 7/43 (16%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 2 SFFYCIATILE----FAAVHYFTKTGSGEIPFLVSSDEIRVHP 40
F Y I +++E + Y + + + R+ P
Sbjct: 26 PFQYWIVSVIENVGGRLRLRYVGLEDTESYDQWLFYLDYRLRP 68
>3p0f_A Uridine phosphorylase 2; transferase; HET: BAU; 1.54A {Homo
sapiens} PDB: 3p0e_A* 2xrf_A
Length = 297
Score = 26.7 bits (58), Expect = 4.2
Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 11/83 (13%)
Query: 37 RVHPHPKSYVSEDEEDEQTNIHKIKVD---------YRVCSVYEIRTLKVCPNIVDQLST 87
R+ S+ E + D K V +C + ++ VC ++D+L
Sbjct: 208 RLDGALCSFSREKKLDYLKRAFKAGVRNIEMESTVFAAMCGLCGLKAAVVCVTLLDRLDC 267
Query: 88 DEVNLV--ANEKYRKKREQEVSR 108
D++NL +Y+++ + +S
Sbjct: 268 DQINLPHDVLVEYQQRPQLLISN 290
>2epl_X N-acetyl-beta-D-glucosaminidase; glycoside hydrolase, family 20,
GCNA, hydro; 1.40A {Streptococcus gordonii} PDB: 2epk_X
2epm_X 2epn_A* 2epo_A
Length = 627
Score = 26.5 bits (58), Expect = 4.6
Identities = 9/59 (15%), Positives = 18/59 (30%), Gaps = 10/59 (16%)
Query: 73 RTLKVCPNIVDQLST----------DEVNLVANEKYRKKREQEVSREGYQFHINSVSKI 121
+ + + ++ DE +LV +Y K + H+ V I
Sbjct: 198 KVYDLIEGMFQTMAHLHTRKINIGMDEAHLVGLGRYLIKHGFQNRSLLMCQHLERVLDI 256
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
0.321 0.136 0.409
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,475,965
Number of extensions: 134745
Number of successful extensions: 236
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 25
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.2 bits)