RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6455
(249 letters)
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 45.3 bits (108), Expect = 8e-06
Identities = 17/101 (16%), Positives = 38/101 (37%)
Query: 29 LVIFGGLLYAYAAISITVLSFVLPSAQCDFGMTSSDKGWLNAAPMLGMVFGSYFWGCLAD 88
L++ LL A ++ T+ + D + + A +L F+G ++D
Sbjct: 1 LLLMLVLLVAVGQMAQTIYIPAIADMARDLNVREGAVQSVMGAYLLTYGVSQLFYGPISD 60
Query: 89 TQGRKITLIGALLVDGLCGIASSVAQYYGVFLALRFINGFA 129
GR+ ++ + + L + + V +A + G
Sbjct: 61 RVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGMG 101
Score = 30.7 bits (70), Expect = 0.41
Identities = 19/107 (17%), Positives = 33/107 (30%), Gaps = 10/107 (9%)
Query: 34 GLLYAYAAISITVLSFVLPSAQCDFGMTSSDKGWLNAAPMLGMVFGSYFWGCLADTQGRK 93
+ A+ A S ++ G++S L P+ FG++F G
Sbjct: 213 AGIAAFEACS----GVLM---GAVLGLSSMTVSILFILPIPAAFFGAWFAGRPNKRFSTL 265
Query: 94 ITL-IGALLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFP 139
+ + L+ GL V+ L G+ FP
Sbjct: 266 MWQSVICCLLAGLLMWIPDWFGVMNVWTLLVPA--ALFFFGAGMLFP 310
>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 = 42.7 bits (100), Expect = 8e-05
Identities = 39/202 (19%), Positives = 62/202 (30%), Gaps = 72/202 (35%)
Query: 6 GEQFDATFENAL-AAAGYGKFHYILVIFGG----------L--LYA-YAAISITVLSFVL 51
FD +AL A G G ++ IFGG L LY Y + V +
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQ-LVAIFGGQGNTDDYFEELRDLYQTYHVL---VGDLIK 189
Query: 52 PSAQCDFGMTSSD--------KG-----WLNAA----------------PMLGMV-FGSY 81
SA+ + + +G WL P++G++ Y
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 82 FWGCLADTQGRKITLIGALLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFPYL 141
+ + L L G A+ +Q G+ A+ I A T +
Sbjct: 250 VVTA------KLLGFTPGELRSYLKG-ATGHSQ--GLVTAV-AI---AETDS-------W 289
Query: 142 GEFQPTAYREKVLCWLEMFWTG 163
F + K + L F+ G
Sbjct: 290 ESFFVSVR--KAITVL--FFIG 307
Score = 33.1 bits (75), Expect = 0.094
Identities = 40/262 (15%), Positives = 71/262 (27%), Gaps = 87/262 (33%)
Query: 46 VLSFVLPSAQCDFGMTSSDKGWLN--AAPMLG----------MVFGSYFWGCLADTQGRK 93
VL+ L + + + +D ++ AA +L + +Y + +
Sbjct: 83 VLNLCLTEFENCY-LEGND---IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 94 ITLIGALLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFPYLGEFQP--TAYR- 150
AL + AQ +F G G Y E + Y
Sbjct: 139 KKSNSALFR----AVGEGNAQLVAIF------GGQ------GNTDDYFEELRDLYQTYHV 182
Query: 151 ---------EKVLCWL-------EMFWTGGIIVLPAVAWLLIPLNLRIETPYFLYS--SW 192
+ L L E +T G L + WL P + + Y L S
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQG---LNILEWLENP-SNTPDKDYLLSIPISC 238
Query: 193 NLFVTLVSVPSILLALWLTRFPESPKFLFE-------CGE-----------------YDQ 228
L + ++ + ++ L F +P L + +
Sbjct: 239 PL-IGVIQLAHYVVTAKLLGF--TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 229 ALDILRQMFSANTGKEI-EHYP 249
+ +F G E YP
Sbjct: 296 VRKAITVLFF--IGVRCYEAYP 315
>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 = 40.8 bits (96), Expect = 2e-04
Identities = 17/112 (15%), Positives = 38/112 (33%), Gaps = 5/112 (4%)
Query: 22 YGKFHYILVIFGGLLYAYAAISITVLSFVLPSAQCDFGMTSSDKGWLNAAPMLGMVFGSY 81
Y + + + + YA + + +P + G + D G+ + + F +
Sbjct: 22 YRRLRWQIFLGIFFGYAAYYLVRKNFALAMPYLV-EQGFSRGDLGFALSGISIAYGFSKF 80
Query: 82 FWGCLADTQGRKITLIGALLVDGLC----GIASSVAQYYGVFLALRFINGFA 129
G ++D ++ L L++ G V L F+ G+
Sbjct: 81 IMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWF 132
Score = 32.3 bits (74), Expect = 0.12
Identities = 13/94 (13%), Positives = 26/94 (27%), Gaps = 5/94 (5%)
Query: 58 FGMTSSDKGWLNAAPMLGMVFGSYFWGCLAD-----TQGRKITLIGALLVDGLCGIASSV 112
W + G+ G ++D +G L+ +
Sbjct: 283 KHFALDKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNP 342
Query: 113 AQYYGVFLALRFINGFAVTGTLGICFPYLGEFQP 146
A V + + GF + G + + + E P
Sbjct: 343 AGNPTVDMICMIVIGFLIYGPVMLIGLHALELAP 376
>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 = 38.4 bits (89), Expect = 0.001
Identities = 31/162 (19%), Positives = 54/162 (33%), Gaps = 3/162 (1%)
Query: 18 AAAGYGKFHYILVIFGGLLYAYAAISITVLSFVLPSAQCDFGMTSSDKGWLNAAPMLGMV 77
AG + + I L+ A++ + +LP Q F +T+ G + +A G
Sbjct: 16 KDAGQSRSYIIPFALLCSLFFLWAVANNLNDILLPQFQQAFTLTNFQAGLIQSAFYFGYF 75
Query: 78 FGSYFWGCLADTQGRKITLIGALLVDG---LCGIASSVAQYYGVFLALRFINGFAVTGTL 134
G L K +I L + ++ Y +FL FI +
Sbjct: 76 IIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYTLFLVGLFIIAAGLGCLE 135
Query: 135 GICFPYLGEFQPTAYREKVLCWLEMFWTGGIIVLPAVAWLLI 176
P++ P + L + F + G I+ LI
Sbjct: 136 TAANPFVTVLGPESSGHFRLNLAQTFNSFGAIIAVVFGQSLI 177
>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 = 34.9 bits (80), Expect = 0.020
Identities = 17/116 (14%), Positives = 35/116 (30%), Gaps = 3/116 (2%)
Query: 24 KFHYILVIFGGLLYAYAAISITVLSFVLPSAQCDFGMTSSDKGWLNAAPMLGMVFGSYFW 83
++ +F + L ++ SD G + AA L + +
Sbjct: 7 TNFWMFGLFFFFYFFIMGAYFPFFPIWLHDIN---HISKSDTGIIFAAISLFSLLFQPLF 63
Query: 84 GCLADTQGRKITLIGALLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFP 139
G L+D G + L+ + + + + + + LG CF
Sbjct: 64 GLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFN 119
>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 = 34.4 bits (78), Expect = 0.029
Identities = 21/174 (12%), Positives = 47/174 (27%), Gaps = 69/174 (39%)
Query: 94 ITLIGALLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFPYLGEFQPTAYREKV 153
+++I + DGL + + +N +T + L +P YR+
Sbjct: 330 LSIIAESIRDGLATW-----DNW------KHVNCDKLTTIIESSLNVL---EPAEYRK-- 373
Query: 154 LCWLEMFWTGGIIVLPAVAWLLIPLNLRIETPYFLYSSWNLFVTLVSVPSILLA-LWLTR 212
++ ++F +P+ILL+ +W
Sbjct: 374 ----------------------------------MFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 213 FPESP---------KFLFECGE-------YDQALDILRQMFSANT--GKEIEHY 248
L E L++ ++ + ++HY
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Score = 27.9 bits (61), Expect = 4.0
Identities = 23/148 (15%), Positives = 47/148 (31%), Gaps = 48/148 (32%)
Query: 100 LLVDGLCGIASSVAQYYGVFLALRFINGFAVTGTLGICFPYLGEFQPTAYREKVLCWLEM 159
+L+DG+ G + +AL + V + ++
Sbjct: 153 VLIDGVLGSGKTW-------VALDVCLSYKVQ----CKMDF-----------------KI 184
Query: 160 FW-TGGIIVLPAVAWLLIPLN---LRIETPYFLYS--SWNLFVTLVSVPSILLALWLTRF 213
FW P +L L +I+ + S S N+ + + S+ + L L ++
Sbjct: 185 FWLNLKNCNSPET--VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK- 241
Query: 214 PESPKFLFECGEYDQALDILRQMFSANT 241
Y+ L +L + +A
Sbjct: 242 -----------PYENCLLVLLNVQNAKA 258
>3sbm_A DISD protein, DSZD; transferase; HET: P6G; 1.35A {Sorangium
cellulosum} PDB: 3rgi_A
Length = 281
Score = 27.4 bits (62), Expect = 3.7
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 1 MGLDFGEQFDATFENALAAAGY 22
MG + F A A GY
Sbjct: 16 MGRALFDAFPALTARADGVLGY 37
>3g87_A Malonyl COA-acyl carrier protein transacylase; ssgcid, niaid,
decode biostructures, dried seaweed, acyltran
transferase; 2.30A {Burkholderia pseudomallei}
Length = 394
Score = 27.3 bits (61), Expect = 5.0
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 1 MGLDFGEQFDATFENALAAAGY 22
MG ++F A A GY
Sbjct: 21 MGGALFDRFADLTAQADAVLGY 42
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
0.328 0.144 0.468
Gapped
Lambda K H
0.267 0.0847 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,024,135
Number of extensions: 240219
Number of successful extensions: 701
Number of sequences better than 10.0: 1
Number of HSP's gapped: 700
Number of HSP's successfully gapped: 27
Length of query: 249
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 158
Effective length of database: 4,160,982
Effective search space: 657435156
Effective search space used: 657435156
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 (25.1 bits)