RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9204
(265 letters)
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 100 bits (250), Expect = 3e-24
Identities = 38/163 (23%), Positives = 69/163 (42%), Gaps = 6/163 (3%)
Query: 98 VSIIVGCIIGSGIFVSPAGVLAETQSVGLSIVIWTVCGLLSTIGALCYAELGTCISRSGG 157
++ G I+GSG+F+ PA + + G++I W V + + ++ YA++ GG
Sbjct: 16 TLMVSGAIMGSGVFLLPANL---ASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGG 72
Query: 158 DYAYILVAFGELPAFLRLWVALLIMRPTTQAIVALTFAQYAIKPFFPDSELPDRAVLLLA 217
YAY FG + + L A+V + + FFP + P + +
Sbjct: 73 SYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVG--YLSYFFPILKDP-WVLTITC 129
Query: 218 AACLCVLTAVNCMSVSWAMQVQTLFTVGKLVALFGIIAAGIGY 260
L + +N + +VQ + TV L+ + GI G +
Sbjct: 130 VVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWFW 172
>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 = 80.1 bits (198), Expect = 2e-17
Identities = 37/167 (22%), Positives = 72/167 (43%), Gaps = 10/167 (5%)
Query: 98 VSIIVGCIIGSGIFVSPAGVLAET--QSVGLSIVIWTVCGLLSTIGALCYAELGTCISRS 155
VS+ VG +IG+ IF GV A+ +++ + ++ G+ + + A Y +LG I +
Sbjct: 14 VSMAVGVMIGASIFSIF-GVGAKIAGRNLPETFIL---SGIYALLVAYSYTKLGAKIVSN 69
Query: 156 GGDYAYILVAFGE-LPAFLRLWVALLIMRPTTQAIVALTFAQYAIKPFFPDSELPDRAVL 214
G A+I A G+ + L + + A+ A FA Y + ++ + +
Sbjct: 70 AGPIAFIHKAIGDNIITGALSI-LLWMSYVISIALFAKGFAGYFLPLI--NAPINTFNIA 126
Query: 215 LLAAACLCVLTAVNCMSVSWAMQVQTLFTVGKLVALFGIIAAGIGYL 261
+ + TA+N + + + KL+ L I AG+ +
Sbjct: 127 ITEIGIVAFFTALNFFGSKAVGRAEFFIVLVKLLILGLFIFAGLITI 173
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 59.1 bits (143), Expect = 3e-10
Identities = 33/169 (19%), Positives = 55/169 (32%), Gaps = 6/169 (3%)
Query: 100 IIVGCIIGSGIFVSPAGVLAETQSVGLSIVI-WTVCGLLSTI-GALCYAELGTCIS-RSG 156
+ I S + T G S+V + G+L I LC AE+ T G
Sbjct: 16 LGFFAITASMVMAVYEYPTFATS--GFSLVFFLLLGGILWFIPVGLCAAEMATVDGWEEG 73
Query: 157 GDYAYILVAFGELPAFLRLWVALLIMRPTTQAIVALTFAQYAIKPFFPDSELPDRAVLLL 216
G +A++ G F + L + ++ + +P +
Sbjct: 74 GVFAWVSNTLGPRWGFAAISFGYLQIAIGFIPMLYFVLGALSYILKWPALNEDPITKTIA 133
Query: 217 AAACLCVLTAVNCMSVSWAMQVQTL-FTVGKLVALFGIIAAGIGYLGIG 264
A L L + ++ + F G L+ F +IA YL G
Sbjct: 134 ALIILWALALTQFGGTKYTARIAKVGFFAGILLPAFILIALAAIYLHSG 182
>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 = 51.2 bits (122), Expect = 1e-07
Identities = 48/277 (17%), Positives = 79/277 (28%), Gaps = 103/277 (37%)
Query: 30 LALYSEGSSNFDHAWD----------GNYDITKI------SLALYSGLFAFGGW------ 67
+ LY S W+ G + I I +L ++ FGG
Sbjct: 1633 MDLYKT-SKAAQDVWNRADNHFKDTYG-FSILDIVINNPVNLTIH-----FGGEKGKRIR 1685
Query: 68 -NYLNFVVDELQDPYNLVLPVTGQRLVRLEGVSIIVGCIIGSGIFVSPAGVLAETQS--- 123
NY + + + D + + F S G+L+ TQ
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSY-----------TFRSEKGLLSATQFTQP 1734
Query: 124 --VGLSIVIW-------------TVCGLLSTIG---AL-CYAE---LGTCIS----RSGG 157
+ + T G S +G AL A+ + + + R G
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATFAG-HS-LGEYAALASLADVMSIESLVEVVFYR--G 1790
Query: 158 DYAYILVAFGELPAFLRLWVALLIMRPTTQAIVALTFAQYAIKPFFPDSELPDRAVLLLA 217
+ V EL R ++ + P VA +F+Q A+ V +
Sbjct: 1791 MTMQVAVPRDELG---RSNYGMIAINPGR---VAASFSQEAL----------QYVVERVG 1834
Query: 218 AACLCVLTAVN--CMSVSWAMQVQTLFTV--GKLVAL 250
++ VN + Q V G L AL
Sbjct: 1835 KRTGWLVEIVNYNVEN----QQY-----VAAGDLRAL 1862
Score = 46.6 bits (110), Expect = 5e-06
Identities = 46/238 (19%), Positives = 68/238 (28%), Gaps = 102/238 (42%)
Query: 37 SSNFDHAWDGNYDITKISLALYSGLFA-FGG----WNYLNFVVDELQDPYNLVLPVTGQR 91
S+ F +GN + L A FGG +Y +EL+D Y T
Sbjct: 143 SALFRAVGEGN-----------AQLVAIFGGQGNTDDYF----EELRDLYQ-----TYHV 182
Query: 92 LVRLEGVSIIVGCIIGSGIFVSPAGVLAETQSV---GLSIVIWTVCGLLSTIGALCYAEL 148
LV +I + + + V GL+I+ W L
Sbjct: 183 LVG----DLIKFS---AETLSELIRTTLDAEKVFTQGLNILEW----------------L 219
Query: 149 GTCISRSGGDY-AYILVAFGELPAFLRLWVALLIMRPTTQAIVALTFAQYAI-------K 200
+ DY I ++ P I + A Y +
Sbjct: 220 ENPSNTPDKDYLLSIPISC---P-----------------LIGVIQLAHYVVTAKLLGFT 259
Query: 201 PFFPDSELPDRAVLLLAAACLC---VLTAVNC-MSVSW---------AMQVQTLFTVG 245
P EL L A ++TAV + SW A+ V LF +G
Sbjct: 260 P----GELRSY----LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV--LFFIG 307
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 36.5 bits (83), Expect = 0.003
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 187 QAIVALTFAQYAIKPFFPDSELPDRAV 213
QA+ L Q ++K + DS P A+
Sbjct: 20 QALKKL---QASLKLYADDSA-PALAI 42
Score = 29.5 bits (65), Expect = 0.60
Identities = 6/16 (37%), Positives = 11/16 (68%), Gaps = 2/16 (12%)
Query: 25 ITKI--SLALYSEGSS 38
+ K+ SL LY++ S+
Sbjct: 22 LKKLQASLKLYADDSA 37
>3qq2_A BRKA autotransporter; beta barrel, transmembrane, membrane
protein-protein transpo complex; 3.00A {Bordetella
pertussis}
Length = 284
Score = 29.5 bits (66), Expect = 1.1
Identities = 12/61 (19%), Positives = 22/61 (36%), Gaps = 4/61 (6%)
Query: 15 FDHAWDGNYDITKISLAL-YSEGSSNFDHAWDGNYDITKISLALYSGLFAFGGWNYLNFV 73
D W + L Y+ + DG + + + Y+ GG+ YL+ V
Sbjct: 53 LDRGWSASGGRWYAGGLLGYTYADRTYPG--DGGGKVKGLHVGGYAAYVGDGGY-YLDTV 109
Query: 74 V 74
+
Sbjct: 110 L 110
>3ihv_A SUSD homolog; NP_813570.1, structural genomics, joint center
structural genomics, JCSG, protein structure
initiative; HET: MSE; 1.70A {Bacteroides
thetaiotaomicron vpi-5482}
Length = 535
Score = 28.7 bits (64), Expect = 2.4
Identities = 8/47 (17%), Positives = 13/47 (27%)
Query: 2 SFFFLYFTEGSSNFDHAWDGNYDITKISLALYSEGSSNFDHAWDGNY 48
+ + F G+ GN + I + S W Y
Sbjct: 39 YYLSILFNLGTDISQVEGSGNENFRIIPTNSFPTTQSEVQQTWAALY 85
>3fs8_A QDTC; acetyltransferase, natural product, deoxysugar; HET: ACO;
1.70A {Thermoanaerobacteriumthermosaccharolyticum} PDB:
3fsb_A* 3fsc_A*
Length = 273
Score = 27.0 bits (60), Expect = 5.5
Identities = 12/66 (18%), Positives = 23/66 (34%), Gaps = 4/66 (6%)
Query: 97 GVSIIVGCIIGSGIFVSPAGVLAETQSVGLSIVIWTVCGLLSTIGALCYAELGTCISRSG 156
V + II +++ P VL + + ++ L + I A G I
Sbjct: 136 NVFVGEKSIIKDFVWLFPHVVLTNDPTPPSNELLGVTIELFAVIAARSVVLPGIHI---- 191
Query: 157 GDYAYI 162
+ A +
Sbjct: 192 NEDALV 197
>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 = 27.1 bits (59), Expect = 6.9
Identities = 27/184 (14%), Positives = 49/184 (26%), Gaps = 52/184 (28%)
Query: 68 NYLNFVVDELQDPYNLVLPVTGQRLVR---LEGVSIIVGCIIGSG----IFVSPAGVLAE 120
++++F E Q Y +L V V + V + I+ I +S
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK------ 58
Query: 121 TQSVGLSIVIWTVCG--------LLSTIGALCYAELGT-----CISRSGGDYAYIL---V 164
G + WT+ + + + Y L + S YI
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 165 AFGELPAFLRLWV-----------ALLIMRPTT------------QAIVALTFAQYAIKP 201
+ + F + V ALL +RP + Y ++
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 202 FFPD 205
Sbjct: 179 KMDF 182
>3slt_A Serine protease ESPP; beta barrel, membrane protein, asparagine
cyclization, autoc protein transport; HET: C8E; 2.46A
{Escherichia coli} PDB: 3slj_A* 3slo_A* 2qom_A
Length = 313
Score = 26.9 bits (59), Expect = 7.8
Identities = 7/61 (11%), Positives = 21/61 (34%), Gaps = 5/61 (8%)
Query: 15 FDHAWDGNYDITKISLAL-YSEGSSNFDHAWDGNYDITKISLALYSGLFAFGGWNYLNFV 73
D + + + +++ S++ D + + LY+ G Y++ +
Sbjct: 80 VDKKHELDGLDLFTGFTVTHTDSSASAD---VFSGKTKSVGAGLYASAMFDSGA-YIDLI 135
Query: 74 V 74
Sbjct: 136 G 136
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 0.142 0.445
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,177,650
Number of extensions: 250558
Number of successful extensions: 651
Number of sequences better than 10.0: 1
Number of HSP's gapped: 638
Number of HSP's successfully gapped: 20
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
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: 56 (25.6 bits)