RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13668
(513 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 = 67.4 bits (165), Expect = 4e-12
Identities = 44/322 (13%), Positives = 88/322 (27%), Gaps = 36/322 (11%)
Query: 20 SNTVILMAGAQIGNVVSMAVSGLLIRYLGGWTSVFYVFGAVGLA--------------WF 65
SN + + I M G + +F + G W+
Sbjct: 89 SNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMGWPPCGRTMVHWW 148
Query: 66 -----ALWMT-FATGAQIGNVVSMAVSGLLIRYLGGWTSVFYVFGAVGLAWFALWMTFAS 119
++ + +G + + L + + W + Y+ +
Sbjct: 149 SQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFNDWHAALYMPAFCAILVALFAFAMMR 208
Query: 120 SDPSESTHYVAYGTAVMHKSNRFIFSFQNLPPT--PWGKIATSAPVIGLIIAQIGHDFGL 177
P + + + Q L + + + + IA +
Sbjct: 209 DTPQSCGLPPIEEYKNDYPDDYNEKAEQELTAKQIFMQYVLPNKLLWYIAIANVFVYLLR 268
Query: 178 FTIVTDLPKYMKDVLHFSITSVDLISGWPNRSVIVTYKMRTILSG---------PRLTSP 228
+ I+ P Y+K+V HF++ + I T+L G R +
Sbjct: 269 YGILDWSPTYLKEVKHFALDKSSWAYFLYEYAGIPG----TLLCGWMSDKVFRGNRGATG 324
Query: 229 FDFSASVGPGLGILAASYSGCNRLAVTVSFTLGMGTMGAFLPSLKVNALDLSPNYAGTLM 288
F V + + +G + + +G G + AGT
Sbjct: 325 VFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAA 384
Query: 289 ALVGGIGALSGTV-SPYLVGVL 309
G G L G+V + +VG
Sbjct: 385 GFTGLFGYLGGSVAASAIVGYT 406
>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 = 57.0 bits (137), Expect = 1e-08
Identities = 97/526 (18%), Positives = 155/526 (29%), Gaps = 171/526 (32%)
Query: 2 ESTVI--NNVMLHRLV---------NEQQSNTVI---LMAGAQIG-NVVSMAVSGLLIRY 46
E+ + N++ H L ++ +I + A + S L
Sbjct: 92 ENCYLEGNDI--HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 47 LGGWTSVFYVFGAVG--LAWF----ALWMTFATGAQIGNVVSMAVSGLLIRYLGGWTSVF 100
G + +FG G +F L+ T+ +G+++ + + L +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV--LVGDLIKFS-AETLSELIRTTLDAE 206
Query: 101 YVFGAVGLAWFALWMTFASSDPSESTHYVAYGTAVMHKSNRFIFSFQNLPPTPWGKIATS 160
VF GL W+ S+ P + Y+ I S
Sbjct: 207 KVFTQ-GLNILE-WLENPSNTPDKD--YLLS-------------------------IPIS 237
Query: 161 APVIGLIIAQIGHDFGLFTIVTDL-PKYMKDVLH-FSITSVDLISG--------WPNRSV 210
P+IG+I Q+ H + + + P ++ L + S L++ W + V
Sbjct: 238 CPLIGVI--QLAH-YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 211 IVTYKMRTIL--SG-------PRLT-SPFDFSASVGPGLGILAASY----SGCNRLAVTV 256
V K T+L G P + P S+ G S S + V
Sbjct: 295 SV-RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG--VPSPMLSISNLTQEQVQD 351
Query: 257 SFTLGMGTMGAFLP-------SLKVNALDLSPNYAGTLMALVGGIGALSGTVSP-YLVGV 308
+ + LP SL VN LV +SG P L G+
Sbjct: 352 Y----VNKTNSHLPAGKQVEISL-VN----GAK------NLV-----VSG--PPQSLYGL 389
Query: 309 LTPNWLAKQICNSVTYKMRTILSG----------PTLTSPF------DFSASVGPGLGIL 352
L K S + R S P SPF S + L
Sbjct: 390 NL--TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV-ASPFHSHLLVPASDLINKDLVKN 446
Query: 353 AASYSGCNRLAVTVSFTLGMGTM----GAFLPSL-------KVN---ALDLSPNYAGTLM 398
S++ + + V T + G+ + V +
Sbjct: 447 NVSFNA-KDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH----- 500
Query: 399 ALVGGIGALSGTVSPYLVGVLTP---NGTLLEW-RVVFWTAFFGTL 440
L G G SG +GVLT +GT RV+ A GTL
Sbjct: 501 ILDFGPGGASG------LGVLTHRNKDGT---GVRVI--VA--GTL 533
Score = 31.2 bits (70), Expect = 1.1
Identities = 44/245 (17%), Positives = 65/245 (26%), Gaps = 63/245 (25%)
Query: 186 KYMKDVLHFSITSVDLISGWPNRSVIVTY-----KMRTILSGPRLTSPFDFSASVGPGLG 240
+ KD FSI D++ P I ++R S + D
Sbjct: 1651 NHFKDTYGFSIL--DIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK 1708
Query: 241 ILAASYSGC------NRLAVTVSFT-LGMGTMG-AFLPSLKVNALDLSPNY-AG------ 285
+ + L+ T FT + M A LK L + AG
Sbjct: 1709 EINEHSTSYTFRSEKGLLSAT-QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY 1767
Query: 286 TLMALVGGIGALS--GTVSPYLV---GVLTPNWLAKQICNSVTYKMRTILSGPTLTSPFD 340
AL +S V +V G+ + + Y M
Sbjct: 1768 A--ALASLADVMSIESLVE--VVFYRGMTMQVAVPRDELGRSNYGM-------------- 1809
Query: 341 FSASVGPGLGILAASYSGCNRLAVTVSFTLGMGTMGAFL-PSLKVNALDLSPN--Y--AG 395
++ PG + S + V G + VN N Y AG
Sbjct: 1810 --IAINPGRVAASFSQEALQYVVERVG-----KRTGWLVEI---VN--YNVENQQYVAAG 1857
Query: 396 TLMAL 400
L AL
Sbjct: 1858 DLRAL 1862
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 34.9 bits (81), Expect = 0.061
Identities = 37/231 (16%), Positives = 68/231 (29%), Gaps = 33/231 (14%)
Query: 87 GLLIRYLGGWTSVFYVFGAVGLA-WFALWMTFASSDPSESTHYVAYGTAVMHKSNRFIFS 145
G L+ + W + + + F++ + P ++ +
Sbjct: 144 GGLLDTMWNWRACYLFLLVLCAGVTFSMARWMPETRPVDAPRTRLLTS------------ 191
Query: 146 FQNLPPTPWGKIATSAPVIGLIIAQIGHDFGLFTIVTDLPKYMKDVLHFSITSVDLISGW 205
+ + ++ ++ IG G+ M VL S +V ++
Sbjct: 192 --------YKTLFGNSGFNCYLLMLIGGLAGIAAFEACSGVLMGAVLGLSSMTVSILFIL 243
Query: 206 PNRSVIVTYKMRTILSGPRLTSPFD-------FSASVGPGLGILAASYSGCNRLAVTVSF 258
P I +G R F + L + + N + V
Sbjct: 244 P----IPAAFFGAWFAG-RPNKRFSTLMWQSVICCLLAGLLMWIPDWFGVMNVWTLLVPA 298
Query: 259 TLGMGTMGAFLPSLKVNALDLSPNYAGTLMALVGGIGALSGTVSPYLVGVL 309
L G P A++ P AGT ALVGG+ + V L +L
Sbjct: 299 ALFFFGAGMLFPLATSGAMEPFPFLAGTAGALVGGLQNIGSGVLASLSAML 349
Score = 34.1 bits (79), Expect = 0.091
Identities = 34/195 (17%), Positives = 52/195 (26%), Gaps = 27/195 (13%)
Query: 252 LAVTVSFTLGMGTMGAFL---PSLKVNALDLSPNYAGTLMALVGGIGALSGTVSPYLVGV 308
+ G+ + AF L L LS L L
Sbjct: 202 NCYLLMLIGGLAGIAAFEACSGVLMGAVLGLSSMTVSILFILPI-------------PAA 248
Query: 309 LTPNWLAKQICNSVTYKMRTILSGPTLTSPFDFSASVGPGLGILAASYSGCNRLAVTVSF 368
W A + + M + + L + + N + V
Sbjct: 249 FFGAWFAGRPNKRFSTLMWQSVIC----------CLLAGLLMWIPDWFGVMNVWTLLVPA 298
Query: 369 TLGMGTMGAFLPSLKVNALDLSPNYAGTLMALVGGIGALSGTVSPYLVGVLTPNGTLLEW 428
L G P A++ P AGT ALVGG+ + V L +L P
Sbjct: 299 ALFFFGAGMLFPLATSGAMEPFPFLAGTAGALVGGLQNIGSGVLASLSAML-PQTGQGSL 357
Query: 429 RVVFWTAFFGTLLEW 443
++ +L W
Sbjct: 358 GLLMTLMGLLIVLCW 372
>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 = 0.27
Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 12/31 (38%)
Query: 271 SLKVNALDLSPNYAGTLMALVGGIGALSGTV 301
SLK+ A D +P AL A+ T+
Sbjct: 28 SLKLYADDSAP-------AL-----AIKATM 46
Score = 31.8 bits (71), Expect = 0.27
Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 12/31 (38%)
Query: 381 SLKVNALDLSPNYAGTLMALVGGIGALSGTV 411
SLK+ A D +P AL A+ T+
Sbjct: 28 SLKLYADDSAP-------AL-----AIKATM 46
Score = 31.5 bits (70), Expect = 0.33
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 12/39 (30%)
Query: 316 KQICNSVTYKMRTILSGPTLTSPFDFSASVGPGLGILAA 354
KQ ++ K++ L L + D SA P L I A
Sbjct: 19 KQ---ALK-KLQASLK---LYAD-D-SA---PALAIKAT 45
Score = 31.1 bits (69), Expect = 0.44
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 8/30 (26%)
Query: 215 KMRTILSGPRLTSPFDFSASVGPGLGILAA 244
K++ L +L + D SA P L I A
Sbjct: 24 KLQASL---KLYAD-D-SA---PALAIKAT 45
>1sw5_A Osmoprotection protein (PROX); binding-protein, compatible solutes,
cation-PI interactions, classical hydrogen bonds,
protein binding; 1.80A {Archaeoglobus fulgidus} SCOP:
c.94.1.1 PDB: 1sw4_A 1sw1_A 1sw2_A 3mam_A*
Length = 275
Score = 27.5 bits (61), Expect = 9.9
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 254 VTVSFTLGMGTMGAFLPSLKVNALDLSPNYAGTL 287
G+G +LK N + L Y GT
Sbjct: 34 YKAEVKEGLGGTLVNYEALKRNDIQLYVEYTGTA 67
Score = 27.5 bits (61), Expect = 9.9
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 364 VTVSFTLGMGTMGAFLPSLKVNALDLSPNYAGTL 397
G+G +LK N + L Y GT
Sbjct: 34 YKAEVKEGLGGTLVNYEALKRNDIQLYVEYTGTA 67
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
0.322 0.137 0.423
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,943,045
Number of extensions: 497235
Number of successful extensions: 1049
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1036
Number of HSP's successfully gapped: 35
Length of query: 513
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 415
Effective length of database: 3,965,535
Effective search space: 1645697025
Effective search space used: 1645697025
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.5 bits)