RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12992
(319 letters)
>3b4r_A Putative zinc metalloprotease MJ0392; intramembrane protease, CBS
domain, hydrolase, metal-binding, transmembrane; 3.30A
{Methanocaldococcus jannaschii}
Length = 224
Score = 34.5 bits (79), Expect = 0.029
Identities = 13/77 (16%), Positives = 32/77 (41%), Gaps = 4/77 (5%)
Query: 120 VLSIVHTDIRVVIKSHSWVIRVNFLVFIFLMRRVFFLFIVIFLLLILLFFFIGLEQRRKN 179
+L + + +KS + + + ++ L + I L+L+ LF + G EQ +
Sbjct: 152 ILRAILSKKYGYLKSTKIAANIGKSLALIMLL-FGLLSMNIILILVSLFVYFGAEQESRV 210
Query: 180 DNKSQMGSGLEQSRRSD 196
++ + + + D
Sbjct: 211 ---VEVETIFKNIKAKD 224
>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 = 33.9 bits (77), Expect = 0.087
Identities = 39/168 (23%), Positives = 57/168 (33%), Gaps = 45/168 (26%)
Query: 110 RDHSSSSSSLVLSIVHTDIRVVI-KSHSWVIRVNFLVFIFLMRRVFFLFIVIFLLLILLF 168
R + ++ +V V I ++ SW F V I +
Sbjct: 264 RSYLKGATGHSQGLV---TAVAIAETDSWES-----------------FFVSVRKAITVL 303
Query: 169 FFIGLEQRRKNDNKSQMGSGLEQSRRSDNK--SQMGS--GLEQSR-----RSDNK----- 214
FFIG+ N S S LE S ++ S M S L Q + N
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 215 SQMGSGLEQSRRSDNKSQMGS-----GLEQSRRSDNKSQMGSGLEQSR 257
Q+ L ++ S G GL + R K++ SGL+QSR
Sbjct: 364 KQVEISLVNGAKNLVVS--GPPQSLYGLNLTLR---KAKAPSGLDQSR 406
>2bs2_C Quinol-fumarate reductase diheme cytochrome B subunit C; 2Fe-2S,
3Fe-4S, 4Fe-4S, citric acid cycle, dihaem cytochrome B;
HET: FAD HEM LMT; 1.78A {Wolinella succinogenes} SCOP:
f.21.2.1 PDB: 1qlb_C* 1e7p_C* 2bs3_C* 2bs4_C*
Length = 256
Score = 32.4 bits (73), Expect = 0.14
Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 12/67 (17%)
Query: 119 LVLSIVHTDI---RVVIKSHSWVI------RVNFLVFIFLMRRVFFLFIVIFLLLILLFF 169
L +H + R+ +K W L + IV+ LL +
Sbjct: 176 LFAVELHGSVGLYRLAVK---WGWFDGETPDKTRANLKKLKTLMSAFLIVLGLLTFGAYV 232
Query: 170 FIGLEQR 176
GLEQ
Sbjct: 233 KKGLEQT 239
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 32.3 bits (74), Expect = 0.19
Identities = 7/42 (16%), Positives = 19/42 (45%)
Query: 143 FLVFIFLMRRVFFLFIVIFLLLILLFFFIGLEQRRKNDNKSQ 184
L + ++ R F I+ + +L+F I + ++ + +
Sbjct: 390 LLYYQWITNRFVFYGIIATFIGVLIFEIIYRKVTKRTFSNNM 431
>3rce_A Oligosaccharide transferase to N-glycosylate PROT;
oligosaccharyltransferase, membrane protein, helical
bundle, glycosylation, acceptor peptide, plasma
membrane; HET: PPN; 3.40A {Campylobacter lari}
Length = 724
Score = 31.9 bits (71), Expect = 0.26
Identities = 13/69 (18%), Positives = 23/69 (33%)
Query: 105 WMWHKRDHSSSSSSLVLSIVHTDIRVVIKSHSWVIRVNFLVFIFLMRRVFFLFIVIFLLL 164
+ + + +L+LS + I + S+ + + L VF IF L
Sbjct: 168 LTFIRLTINKDIFTLLLSPIFIMIYLWWYPSSYSLNFAMIGLFGLYTLVFHRKEKIFYLA 227
Query: 165 ILLFFFIGL 173
I L
Sbjct: 228 IALMIIALS 236
>2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM, fusion,
lipidic cubic phase, lipidic, mesophase, cholesterol,
membrane protein; HET: MAL CAU CLR PLM 12P; 2.40A {Homo
sapiens} PDB: 3p0g_A* 3d4s_A* 3ny8_A* 3ny9_A* 3nya_A*
3pds_A*
Length = 500
Score = 30.4 bits (68), Expect = 0.71
Identities = 18/163 (11%), Positives = 46/163 (28%), Gaps = 1/163 (0%)
Query: 154 FFLFIVIFLLLILLFFFIGLEQRRK-NDNKSQMGSGLEQSRRSDNKSQMGSGLEQSRRSD 212
F++ +VI + + F Q + G L+ + ++ +G G ++
Sbjct: 215 FYVPLVIMVFVYSRVFQEAKRQLNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPS 274
Query: 213 NKSQMGSGLEQSRRSDNKSQMGSGLEQSRRSDNKSQMGSGLEQSRRSDNKSQMGSGLEQS 272
+ + R+ N E+ D + + L ++ + + +
Sbjct: 275 LNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAVRRAA 334
Query: 273 RRSDNKSQMGSGLEQSRRSDNKSQMGSGLEQSRKSDNKSQMGS 315
+ +G+ S Q E +
Sbjct: 335 LINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQ 377
>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION
channel, inwardly rectifying channel, metal transport;
2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16
f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A*
2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A*
2x6a_A*
Length = 301
Score = 29.6 bits (66), Expect = 1.4
Identities = 4/21 (19%), Positives = 7/21 (33%)
Query: 151 RRVFFLFIVIFLLLILLFFFI 171
L ++L+ LF
Sbjct: 47 PVFITLITGLYLVTNALFALA 67
>3rko_M NADH-quinone oxidoreductase subunit M; complex I, proton pump,
membrane protein, Na ubiquinone, cytoplasmic membrane;
HET: LFA CA7; 3.00A {Escherichia coli}
Length = 509
Score = 29.6 bits (67), Expect = 1.5
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 141 VNFLVFIFLMRRVF-----FLFIVIF-LLLILLFFFIGL 173
+N + + + VF FLF + ++L+ ++F I L
Sbjct: 118 LNLMWILGGVIGVFLAIDMFLFFFFWEMMLVPMYFLIAL 156
>2jln_A MHP1; hydantoin, transporter, membrane protein,
nucleobase-cation-symport-1 family; 2.85A
{Microbacterium liquefaciens} PDB: 2jlo_A* 2x79_A
Length = 501
Score = 28.6 bits (64), Expect = 3.5
Identities = 8/38 (21%), Positives = 17/38 (44%)
Query: 141 VNFLVFIFLMRRVFFLFIVIFLLLILLFFFIGLEQRRK 178
++ + + L+IVIF + ++ F G+ R
Sbjct: 129 LDEITRLLTGFTNLPLWIVIFGAIQVVTTFYGITFIRW 166
>2xut_A Proton/peptide symporter family protein; transport protein,
membrane protein, major facilitator super transporter;
3.62A {Shewanella oneidensis}
Length = 524
Score = 28.1 bits (63), Expect = 4.2
Identities = 9/75 (12%), Positives = 25/75 (33%), Gaps = 5/75 (6%)
Query: 113 SSSSSSLVLSIVHTDIRVVIKSHSWVIRVNFLVFIFLMRRVFFLFIVIFLLLILLFFFIG 172
S + +L + + + ++ + V + F F +L ++F
Sbjct: 449 SVTVGNLWVLLANVSVKSPTVTEQIVQTGMSVTAFQ-----MFFFAGFAILAAIVFALYA 503
Query: 173 LEQRRKNDNKSQMGS 187
+ ++ + GS
Sbjct: 504 RSYQMQDHYRQATGS 518
>3pjz_A Potassium uptake protein TRKH; structural genomics, PSI-2, protein
structure initiative, NE consortium on membrane protein
structure; 3.51A {Vibrio parahaemolyticus}
Length = 494
Score = 27.6 bits (62), Expect = 7.1
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 154 FFLFIVIFLLLILLFFFIGL 173
F + ++F++ +L G+
Sbjct: 403 FSAYALVFVVCMLGLIATGM 422
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
0.311 0.125 0.341
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,027,952
Number of extensions: 209841
Number of successful extensions: 328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 318
Number of HSP's successfully gapped: 20
Length of query: 319
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 225
Effective length of database: 4,077,219
Effective search space: 917374275
Effective search space used: 917374275
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.4 bits)