RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4740
(147 letters)
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 100 bits (251), Expect = 6e-26
Identities = 27/146 (18%), Positives = 48/146 (32%), Gaps = 3/146 (2%)
Query: 3 IPGGLLAQKFGGKHTLGFGILSTAIFTLLTPFA--ARQSANWLIALRFFEGLGEGTTFPA 60
G ++ + + L G++ A L F A S + L F G +G +P
Sbjct: 80 FIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMGWPP 139
Query: 61 LNTLLAQWVPPTERGKIGSFVFAGNQIGTVFSSFLSGFLLKYTDGDWPEIFYLFGILGVL 120
+ W ERG I S + +G L + + + W Y+ +L
Sbjct: 140 CGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFND-WHAALYMPAFCAIL 198
Query: 121 WFVAWCFLCYNDPASHPYISQREKEY 146
+ + + P S E +
Sbjct: 199 VALFAFAMMRDTPQSCGLPPIEEYKN 224
Score = 30.8 bits (70), Expect = 0.14
Identities = 21/134 (15%), Positives = 39/134 (29%), Gaps = 10/134 (7%)
Query: 3 IPGGLLA-------QKFGGKHTLGFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEG 55
IPG LL + T F + I T++ + + G
Sbjct: 302 IPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGFLIY 361
Query: 56 TTFPALNTLLAQWVPPTERGKIGSFV-FAGNQIGTVFSSFLSGFLLKYTDGDWPEIFYLF 114
+ + P G F G G+V +S + G+ + + W F +
Sbjct: 362 GPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVDFF--GWDGGFMVM 419
Query: 115 GILGVLWFVAWCFL 128
+L + +
Sbjct: 420 IGGSILAVILLIVV 433
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 40.3 bits (94), Expect = 9e-05
Identities = 20/128 (15%), Positives = 43/128 (33%), Gaps = 5/128 (3%)
Query: 6 GLLAQKFGGKHTLGFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEGTTFPALNTLL 65
L+ + GGK+ L ++ + + FA SA ++ L+ +
Sbjct: 280 PLIINRIGGKNALLLAGTIMSVRIIGSSFAT--SALEVVILKTLHMFEVPFLLVGCFKYI 337
Query: 66 AQWVPPTERGKIGSFVFA-GNQIGTVFSSFLSGFLLKYTDGDWPEIFYLFGILGVLWFVA 124
I F Q+ +F S L+G + Y + + + G++ + + +
Sbjct: 338 TSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNM--YESIGFQGAYLVLGLVALGFTLI 395
Query: 125 WCFLCYND 132
F
Sbjct: 396 SVFTLSGP 403
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 39.5 bits (93), Expect = 1e-04
Identities = 22/124 (17%), Positives = 43/124 (34%), Gaps = 5/124 (4%)
Query: 6 GLLAQKFGGKHTLGFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEGTTFPALNTLL 65
G ++ + G + + G+ + TL+ S LIA +G+G G TL
Sbjct: 56 GPISDRVGRRPVILVGMSIFMLATLVAVTT--SSLTVLIAASAMQGMGTGVGGVMARTLP 113
Query: 66 AQWVPPTERGKIGSFVFAGNQIGTVFSSFLSGFLLKYTDGDWPEIFYLFGILGVL-WFVA 124
T+ S + G + + + + G L +W + +L F
Sbjct: 114 RDLYERTQLRHANSLLNMGILVSPLLAPLIGGLLDTMW--NWRACYLFLLVLCAGVTFSM 171
Query: 125 WCFL 128
++
Sbjct: 172 ARWM 175
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 35.3 bits (81), Expect = 0.004
Identities = 20/101 (19%), Positives = 34/101 (33%), Gaps = 1/101 (0%)
Query: 1 MHIPGGLLAQKFGGKHTLGFGILSTAIFTLL-TPFAARQSANWLIALRFFEGLGEGTTFP 59
+ IP G+L +K K + G+ A+ L P A + + F G G
Sbjct: 77 IPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYTLFLVGLFIIAAGLGCLET 136
Query: 60 ALNTLLAQWVPPTERGKIGSFVFAGNQIGTVFSSFLSGFLL 100
A N + P + + N G + + L+
Sbjct: 137 AANPFVTVLGPESSGHFRLNLAQTFNSFGAIIAVVFGQSLI 177
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide
transport, major facilitator SUPE transporter, MFS;
3.30A {Streptococcus thermophilus}
Length = 491
Score = 34.7 bits (80), Expect = 0.007
Identities = 22/103 (21%), Positives = 39/103 (37%), Gaps = 5/103 (4%)
Query: 18 LGFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEGTTFPALNTLLAQWVPPTERGKI 77
L F ++ AI L + + S WL+ LGE P ++ + P ++
Sbjct: 366 LSFLLM--AIPGALYGTSGKVSPLWLVGSWALVILGEMLISPVGLSVTTKLAPKAFNSQM 423
Query: 78 GSFVFAGNQIGTVFSSFLSGFLLKYTDGDWPEIFYLFGILGVL 120
S F + +G+ ++ L Y F FG+ V+
Sbjct: 424 MSMWFLSSSVGSALNAQLVTL---YNAKSEVAYFSYFGLGSVV 463
>2xut_A Proton/peptide symporter family protein; transport protein,
membrane protein, major facilitator super transporter;
3.62A {Shewanella oneidensis}
Length = 524
Score = 33.1 bits (76), Expect = 0.025
Identities = 19/121 (15%), Positives = 34/121 (28%), Gaps = 2/121 (1%)
Query: 10 QKFG-GKHTLGFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEGTTFPALNTLLAQW 68
+K G G G + L+ + S W I GE
Sbjct: 374 RKMGAGIAITGLSWIVVGTIQLMMDGGSALSIFWQILPYALLTFGEVLVSATGLEFAYSQ 433
Query: 69 VPPTERGKIGSFVFAGNQIGTVFSSFLSGFLLKYTDGD-WPEIFYLFGILGVLWFVAWCF 127
P +G I SF +G ++ + + T + + + +F +
Sbjct: 434 APKAMKGTIMSFWTLSVTVGNLWVLLANVSVKSPTVTEQIVQTGMSVTAFQMFFFAGFAI 493
Query: 128 L 128
L
Sbjct: 494 L 494
>3ujz_A Metalloprotease STCE; mucin-type glycoprotein, hydrolase; 2.50A
{Escherichia coli}
Length = 869
Score = 26.7 bits (58), Expect = 3.2
Identities = 16/102 (15%), Positives = 32/102 (31%), Gaps = 10/102 (9%)
Query: 19 GFGILSTAIFTLLTPFAARQSANWLIALRFFEGLGEGTTFPALNTLLAQWVPPTERGKIG 78
G + FT+ TP ++ + F+ T F N + P
Sbjct: 492 GSPFSAANRFTMYTPNSSAIIQRFFENKAVFDSRS-STGFSKWNADTQEMEPYEHTIDRA 550
Query: 79 SFVFAGNQIGTVFSSFLSGFLLKYT-------DGDWPEIFYL 113
+ A + S ++ + +Y +G+W Y+
Sbjct: 551 EQITASVN--ELSESKMAELMAEYAVVKVHMWNGNWTRNIYI 590
>1vpr_A Luciferase; beta barrel, fatty acid binding protein, lipocalin, PH
regulation, luminescent protein; 1.80A {Lingulodinium
polyedrum} SCOP: b.60.1.7
Length = 374
Score = 26.6 bits (58), Expect = 3.8
Identities = 30/107 (28%), Positives = 37/107 (34%), Gaps = 23/107 (21%)
Query: 36 ARQSANWLIALRFFEGLGEGTTFPALNTLLAQWVPPTERGKIGSFVFAGNQIGTVFSSFL 95
AR W F+E L G LL WV P E KIG F
Sbjct: 226 ARAKRTWKSGHYFYEPLVSG------GNLLGVWVLPEEYRKIG-----------FFWEME 268
Query: 96 SGFLLKYTDGDWPEIFYLF-----GILGVLWFVAWCFLCYNDPASHP 137
SG + +P Y F + G + FV + + NDP S P
Sbjct: 269 SGRCFRIERRAFPVGPYTFMRQATEVGGKISFVFYVKVS-NDPESDP 314
>2zuy_A YESX protein; beta-propeller, lyase; 1.65A {Bacillus subtilis}
Length = 620
Score = 25.8 bits (56), Expect = 6.7
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 9/74 (12%)
Query: 54 EGTTFPALNTLLAQWVPPTERGKIGSFVFAGNQIGTVFSSFLSGFLLKYTDGDWPEIFYL 113
+G T AL T ++ PP RGK+ + G+ G FL+G Y DG+ P +
Sbjct: 239 KGETGEALTT--VEYEPP--RGKLEDW---GDGYGNRMDRFLAG--TAYLDGERPSLVMA 289
Query: 114 FGILGVLWFVAWCF 127
G VA+ F
Sbjct: 290 RGYYTRTVLVAYDF 303
>3otd_A TRNA(His) guanylyltransferase; polymerase-like PALM domain,
catalytic carboxylates; 2.28A {Homo sapiens} PDB: 3otc_A
3otb_A 3ote_A
Length = 269
Score = 25.7 bits (56), Expect = 7.5
Identities = 14/73 (19%), Positives = 24/73 (32%), Gaps = 7/73 (9%)
Query: 79 SFVF------AGNQIGTVFSSFLSGFLLKYTDGDWPEIFYLFGILGVLWFVAWCFLCYND 132
SFVF + + S F Y W + F +L F + ++
Sbjct: 79 SFVFKRKTNWFKRRASKFMTHVASQFASSYVFY-WRDYFEDQPLLYPPGFDGRVVVYPSN 137
Query: 133 PASHPYISQREKE 145
Y+S R+ +
Sbjct: 138 QTLKDYLSWRQAD 150
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 0.145 0.481
Gapped
Lambda K H
0.267 0.0675 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,355,898
Number of extensions: 132814
Number of successful extensions: 354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 349
Number of HSP's successfully gapped: 19
Length of query: 147
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 62
Effective length of database: 4,328,508
Effective search space: 268367496
Effective search space used: 268367496
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: 53 (24.3 bits)