RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4758
(318 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 = 134 bits (339), Expect = 3e-36
Identities = 54/306 (17%), Positives = 107/306 (34%), Gaps = 14/306 (4%)
Query: 1 MSKWAPPMERARLFSFAFSGTQFGNLVTLPVAGLLAGSPWGWPSIFYVSGAVAIVWAAAW 60
M W ER + S G + + L W + Y+ AI+ A
Sbjct: 144 MVHWWSQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFNDWHAALYMPAFCAILVALFA 203
Query: 61 CYIGANSPAQHPFISLEE--RIYIETSLVHSSTVSSSMKVPWKAILTSLPVWAVLITHLC 118
+ ++P +EE Y + + ++ ++ + +L + +W + I ++
Sbjct: 204 FAMMRDTPQSCGLPPIEEYKNDYPDDYNEKAEQELTAKQIFMQYVLPNKLLWYIAIANVF 263
Query: 119 QNWGYWTLLTEMPSYINSVLQFDIKSNGFLSAAPYLAQWILILVFSWLADYIVAKQILSP 178
+ +L P+Y+ V F + + + A L+ W++D +
Sbjct: 264 VYLLRYGILDWSPTYLKEVKHFALDKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNR-GA 322
Query: 179 TVSRKMWNTIGLWGSAAALVGLSFVGDNLVGAITCLTLAIAINAGTYTGFLSNHLDLSP- 237
T M L A + ++ G+ V I + + I G + L+L+P
Sbjct: 323 TGVFFM----TLVTIATIVYWMNPAGNPTVDMICMIVIGFLIY-GPVMLIGLHALELAPK 377
Query: 238 NFAGTLMGFTNGCANI-ASILGPLFVGFIVTDNTSVSQWQTIFLIAAAIFFFGNLIFLIF 296
AGT GFT + S+ VG+ V D W F++ ++ ++
Sbjct: 378 KAAGTAAGFTGLFGYLGGSVAASAIVGYTV-DFFG---WDGGFMVMIGGSILAVILLIVV 433
Query: 297 GTSEVQ 302
E +
Sbjct: 434 MIGEKR 439
>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 = 48.5 bits (115), Expect = 2e-06
Identities = 81/400 (20%), Positives = 122/400 (30%), Gaps = 159/400 (39%)
Query: 3 KW------APPME--RARLFSFAFSG-TQFGN-LVT------------------------ 28
+W P + + S G Q + +VT
Sbjct: 217 EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG 276
Query: 29 LPVAGLLAGSPWGWPSIFYVSGAVAIVWAAAWCYIGANSPAQHPFISLEERIYIETSLVH 88
L A +A + W S F+VS AI +IG +P SL I +E SL +
Sbjct: 277 LVTAVAIAETD-SWES-FFVSVRKAITVLF---FIGVRCYEAYPNTSLPPSI-LEDSLEN 330
Query: 89 SSTVSSSMKVPWKAILTSLPVWAVLITHLCQ-NWGYWTLLTEMP-------SYINS---- 136
+ V S M +++L + ++ + N + +P S +N
Sbjct: 331 NEGVPSPM-----LSISNLTQ-EQVQDYVNKTN-------SHLPAGKQVEISLVNGAKNL 377
Query: 137 VL------------------------QFDIK--------SNGFL--SA---APYLAQWIL 159
V+ Q I SN FL ++ + L
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP-AS 436
Query: 160 ILVFSWLADYIV---AKQILSPTVSRKMWNTIGLWGSAAALVGLSF-VGDNLVGAITCLT 215
L+ L V AK I P V ++T + L LS + + +V I L
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIP-V----YDT----FDGSDLRVLSGSISERIVDCIIRLP 487
Query: 216 LAIAINAGTYTGFLSNH-LDLSPNFAGTLMGFTNGCANIASILGPLFVGFIVTDNTSVSQ 274
+ T T F + H LD P G G LG L D T V
Sbjct: 488 ----VKWETTTQFKATHILDFGP---GGASG-----------LGVLTH--RNKDGTGVR- 526
Query: 275 WQTIFLIAAAIFFFGNLIFLIFGTSEVQPWNDSEYDGDKK 314
+I A GT ++ P D +Y G K+
Sbjct: 527 -----VIVA-------------GTLDINP--DDDY-GFKQ 545
Score = 28.1 bits (62), Expect = 4.9
Identities = 26/154 (16%), Positives = 44/154 (28%), Gaps = 29/154 (18%)
Query: 163 FSWL---ADYIVAKQILSPTVSRKMWNTIGLWG-----SAAALVG--LSFVGDNL----V 208
L A + +A Q+ T G + A LVG L +V + V
Sbjct: 18 HVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 209 GAITCLTLAIAINAGTYTGFLSN---HLDLSPNFAGTLMGFTNGC-ANIASILGPLFVGF 264
G + L + + +L H A L+ + ++
Sbjct: 78 GQFDQV-LNLCLTEFE-NCYLEGNDIH-----ALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 265 IVTDNTSVSQWQTIFLIAAAIFFFGNL-IFLIFG 297
I+ + + A GN + IFG
Sbjct: 131 IMAKRPFDKKSNSALFRAVGE---GNAQLVAIFG 161
>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 = 0.12
Identities = 30/207 (14%), Positives = 64/207 (30%), Gaps = 33/207 (15%)
Query: 101 KAILTSLPVWAVLITHLCQNWGYWTLLTEMPSYINSVLQFDIKSNGFLSAAPYL----AQ 156
+++L L ++A++ +W+L + S LQ + +
Sbjct: 296 RSVLRILVLFALVTP-------FWSLFDQKASTWI--LQANDMVKPQWFEPAMMQALNPL 346
Query: 157 WILIL--VFSWLADYIVAKQILSPTVSRKMWNTIGLWGSAAALVGLSFV----GDNLVGA 210
+++L +++ + + + T RKM G+ + + + + + +
Sbjct: 347 LVMLLIPFNNFVLYPAIERMGVKLTALRKM--GAGIAITGLSWIVVGTIQLMMDGGSALS 404
Query: 211 ITCLTLAIAINAG----TYTGFLSNHLDLSP-NFAGTLMGF---TNGCANIASILGPLFV 262
I L A+ L +P GT+M F + N+ L
Sbjct: 405 IFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMKGTIMSFWTLSVTVGNLWV----LLA 460
Query: 263 GFIVTDNTSVSQWQTIFLIAAAIFFFG 289
V T Q + A F
Sbjct: 461 NVSVKSPTVTEQIVQTGMSVTAFQMFF 487
>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 = 31.8 bits (71), Expect = 0.13
Identities = 12/52 (23%), Positives = 17/52 (32%), Gaps = 28/52 (53%)
Query: 173 KQILSPTVSRKMWNTIGLW--GSAAALVGLSFVGDNLVGAITCLTLAIAINA 222
KQ L +K+ ++ L+ SA AL AI A
Sbjct: 19 KQAL-----KKLQASLKLYADDSAPAL---------------------AIKA 44
>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 = 32.2 bits (73), Expect = 0.19
Identities = 25/185 (13%), Positives = 49/185 (26%), Gaps = 4/185 (2%)
Query: 104 LTSLPVWAVLITHLCQNWGYWTLLTEMPSYINSVLQFDIKSNGFLSAAPYLAQWILILVF 163
L + W + + P +++ + G + AA L + +F
Sbjct: 4 LKNTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLF 63
Query: 164 SWLADYIVAKQILSPTVSRKMWNTIGLWGSAAALVGLSFVGDNLVGAITCLTLAIAINAG 223
L+D + ++ L ++ + + G + LVG+I
Sbjct: 64 GLLSDKLGLRKYLLWIIT---GMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNA 120
Query: 224 TYTGFLSNHLDLSPNFAGTLMGFTNGCANIASILGPLFVGFIVTDNTSVSQWQTIFLIAA 283
+ +S G + LG VG + T N W
Sbjct: 121 GAPAVEAFIEKVSRRSNFE-FGRARMFGCVGWALGASIVGIMFTINNQFVFWLGSGCALI 179
Query: 284 AIFFF 288
Sbjct: 180 LAVLL 184
Score = 29.5 bits (66), Expect = 1.3
Identities = 33/277 (11%), Positives = 72/277 (25%), Gaps = 29/277 (10%)
Query: 23 FGNLVTLPVAGLLAGSPWGWPSIFYVSGAVAIVWAAAWCYIGANSPAQHPFISLEERIYI 82
G + + G++ +F++ A++ A + ++ +
Sbjct: 149 VGWALGASIVGIMFT--INNQFVFWLGSGCALILAVLLFFA---KTDAPSSATVANAVGA 203
Query: 83 ETSLVHSSTVSSSMKVP--WKAILTSLPVWAVLITHLCQNWGYWTLLTEMPSYINSVLQF 140
S + P W L + V Q ++T V
Sbjct: 204 NHSAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVF-- 261
Query: 141 DIKSNGFLSAAPYLAQWILILVFSWLADYIVAKQILSPTVSRKMWNTIGLWGSAAALVGL 200
G+++ L ++ + + I K L + + ++G
Sbjct: 262 -----GYVTTMGELLNASIMFFAPLIINRIGGKNAL----------LLAGTIMSVRIIGS 306
Query: 201 SFVGDNLVGAITCLTLAIAINAGTYTGFLSNHLDLSPNFAGTLMGFTNGCAN-IASILGP 259
SF L I + F F+ T+ +A I
Sbjct: 307 SFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMS 366
Query: 260 LFVGFIVTDNTSVSQWQTIFLIAAAIFFFGNLIFLIF 296
+ G + +Q +L+ + LI +
Sbjct: 367 VLAGNMY----ESIGFQGAYLVLGLVALGFTLISVFT 399
Score = 27.6 bits (61), Expect = 6.6
Identities = 12/71 (16%), Positives = 24/71 (33%), Gaps = 1/71 (1%)
Query: 223 GTYTGFLSNHLDLSPNFAGTLMGFTNGCANIASILGPLFVGFIVTDNTSVSQWQTIFLIA 282
G Y F L + + + G ++ S+L G + D + ++ +
Sbjct: 24 GAYFPFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLS-DKLGLRKYLLWIITG 82
Query: 283 AAIFFFGNLIF 293
+ F IF
Sbjct: 83 MLVMFAPFFIF 93
>3fj1_A Putative phosphosugar isomerase; YP_167080.1, structural GEN joint
center for structural genomics, JCSG, protein structu
initiative; HET: MSE; 1.75A {Silicibacter pomeroyi
dss-3}
Length = 344
Score = 29.4 bits (67), Expect = 1.6
Identities = 8/43 (18%), Positives = 17/43 (39%)
Query: 101 KAILTSLPVWAVLITHLCQNWGYWTLLTEMPSYINSVLQFDIK 143
K +TS +L+ ++ G L +P + + + D
Sbjct: 154 KTFVTSAVAGLMLLADWAEDDGLRAALGNLPETLAAASRIDWP 196
>3hba_A Putative phosphosugar isomerase; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE CIT; 2.00A {Shewanella denitrificans
OS217}
Length = 334
Score = 28.3 bits (64), Expect = 3.5
Identities = 6/52 (11%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 101 KAILTSLPVWAVLITHLCQNWGYWTLLTEMPSYINSVLQFD--IKSNGFLSA 150
K+ L +L + QN + +P + + + + +++
Sbjct: 153 KSYLATLSALLQVAAKWTQNESLVEAVNSLPQALQAAVDAEPQLRAGSLTDV 204
>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase
homologue; HET: DNA SAH; 1.80A {Homo sapiens} SCOP:
c.66.1.26
Length = 343
Score = 27.1 bits (60), Expect = 7.9
Identities = 10/42 (23%), Positives = 12/42 (28%), Gaps = 12/42 (28%)
Query: 7 PMERARLFSF----AFSGT--------QFGNLVTLPVAGLLA 36
P E A L F F GN + + V L
Sbjct: 297 PKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVHVVAKLI 338
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
0.324 0.136 0.443
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,932,300
Number of extensions: 285436
Number of successful extensions: 798
Number of sequences better than 10.0: 1
Number of HSP's gapped: 781
Number of HSP's successfully gapped: 29
Length of query: 318
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 224
Effective length of database: 4,077,219
Effective search space: 913297056
Effective search space used: 913297056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 57 (26.2 bits)