RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6141
(144 letters)
>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 = 33.9 bits (77), Expect = 0.012
Identities = 28/157 (17%), Positives = 42/157 (26%), Gaps = 48/157 (30%)
Query: 3 SAVLASLTVSLGS---M--IVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSA 57
S + SL + G M I + N P ++ I +
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL----PAGKQVE-I-------S 369
Query: 58 LFGG-----MAGGPLIESLGRRTTIL-----STGL-----PF-------IVSFLLIA--- 92
L G ++G P +SL L +GL PF FL +A
Sbjct: 370 LVNGAKNLVVSGPP--QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF 427
Query: 93 ----LANGVPMILAGRCVAGFCVGIASLALPVYLGET 125
L +I + +PVY
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Score = 31.2 bits (70), Expect = 0.12
Identities = 30/115 (26%), Positives = 39/115 (33%), Gaps = 43/115 (37%)
Query: 23 AYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGL 82
+T PA+ + E+ S G L+P A F AG SLG
Sbjct: 1730 QFTQPAL-----TLMEKAAFEDLKSK-G-LIPADATF---AG----HSLGEYA------- 1768
Query: 83 PFIVSFLLIALANGVPMILAGRCVAGFCVGIASLALPVYL-GETVQPEV-RGTLG 135
ALA +A + I SL V+ G T+Q V R LG
Sbjct: 1769 ---------ALA----------SLADV-MSIESLVEVVFYRGMTMQVAVPRDELG 1803
Score = 28.9 bits (64), Expect = 0.74
Identities = 21/103 (20%), Positives = 36/103 (34%), Gaps = 21/103 (20%)
Query: 1 MKSAVLASLTVSLGSMIVGFASAYTSPAIPSM-----NQM-----GSRVSPTEEEAS--W 48
M + LT+S GS+ +P+ +Q+ PTE A+
Sbjct: 1 MDAYSTRPLTLSHGSLEHVL-------LVPTASFFIASQLQEQFNKILPEPTEGFAADDE 53
Query: 49 IGSLMPLSALFGGMAGGPLIES-LGRRTTILSTGLP-FIVSFL 89
+ L F G + S +G+ +L+ L F +L
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL 96
>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 = 32.6 bits (74), Expect = 0.037
Identities = 13/101 (12%), Positives = 30/101 (29%), Gaps = 3/101 (2%)
Query: 46 ASWIGSLMPLSAL---FGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILA 102
G + + L +I +G + +L G V + + A ++
Sbjct: 258 TRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVI 317
Query: 103 GRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGN 143
+ + F V + Y+ + T+ L+
Sbjct: 318 LKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFK 358
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 31.5 bits (72), Expect = 0.067
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 55 LSALFGGMA-----GGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGF 109
+ A GP+ + +GRR IL F+++ L+ + + +++A + G
Sbjct: 41 MGAYLLTYGVSQLFYGPISDRVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGM 100
Query: 110 CVGIAS 115
G+
Sbjct: 101 GTGVGG 106
>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 = 31.6 bits (72), Expect = 0.069
Identities = 15/105 (14%), Positives = 34/105 (32%), Gaps = 5/105 (4%)
Query: 45 EASWIGSLMPLSALFGGMAGGPLIESLGRRT-----TILSTGLPFIVSFLLIALANGVPM 99
++SW L + + G + G + + + R T + + A +
Sbjct: 289 KSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTV 348
Query: 100 ILAGRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGNI 144
+ V GF + + + ++ E + GT G +
Sbjct: 349 DMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYL 393
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 29.5 bits (66), Expect = 0.43
Identities = 10/86 (11%), Positives = 23/86 (26%), Gaps = 18/86 (20%)
Query: 37 SRVSPTEEEASWIGSLMPLSALFGGMAGGPLIESL-------GRRTTILSTGLPFIVSFL 89
S ++ E ++ + GM G + + +
Sbjct: 1027 SGITDPYEMYKYVHVSEVGNCSGSGMGGVSALRGMFKDRFKDEPVQN------DILQESF 1080
Query: 90 LIALANGVPMILAG-----RCVAGFC 110
+ ++ V M+L + G C
Sbjct: 1081 INTMSAWVNMLLISSSGPIKTPVGAC 1106
>1bf2_A Isoamylase; hydrolase, glycosidase, debranching enzyme; 2.00A
{Pseudomonas amyloderamosa} SCOP: b.1.18.2 b.71.1.1
c.1.8.1
Length = 750
Score = 28.5 bits (64), Expect = 0.96
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 93 LANGVPMILAG 103
L+ G P++ G
Sbjct: 571 LSAGTPLMQGG 581
>2ya1_A Putative alkaline amylopullulanase; hydrolase, glycoside hydrolase;
HET: BGC GLC; 2.25A {Streptococcus pneumoniae}
Length = 1014
Score = 28.3 bits (63), Expect = 1.0
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 90 LIALANGVPMILAG 103
++ A G P I +G
Sbjct: 801 MVLTAQGTPFIHSG 814
>2vr5_A Glycogen operon protein GLGX; hydrolase, glycosidase, glycosyl
hydrolase, glycogen debraching; HET: GLC A16; 2.8A
{Sulfolobus solfataricus} PDB: 2vnc_A* 2vuy_A
Length = 718
Score = 28.0 bits (63), Expect = 1.0
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 93 LANGVPMILAG 103
++ G PMIL G
Sbjct: 533 VSQGTPMILGG 543
>2wsk_A Glycogen debranching enzyme; carbohydrate metabolism, hydrolase,
glycosidase, ISO-amylase glycosyl hydrolase, glycogen
metabolism; 2.25A {Escherichia coli k-12}
Length = 657
Score = 28.0 bits (63), Expect = 1.1
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 93 LANGVPMILAG 103
L+ G PM+LAG
Sbjct: 505 LSQGTPMLLAG 515
>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor,
voltage dependent, ION CH shaker, membrane protein,
eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB:
3lnm_B* 3lut_B* 2a79_B*
Length = 514
Score = 28.1 bits (62), Expect = 1.3
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 97 VPMILAGRCVAGFC--VGIASLALPV 120
VP + G+ V C G+ ++ALPV
Sbjct: 396 VPTTIGGKIVGSLCAIAGVLTIALPV 421
>2wan_A Pullulanase; hydrolase, glycoside hydrolase, polysaccharide,
amylase, starch, carbohydrate; 1.65A {Bacillus
acidopullulyticus}
Length = 921
Score = 27.9 bits (62), Expect = 1.5
Identities = 4/14 (28%), Positives = 8/14 (57%)
Query: 90 LIALANGVPMILAG 103
++ + GVP + G
Sbjct: 766 VVFTSQGVPFMQGG 779
>4aio_A Limit dextrinase; hydrolase, pullulanase, glycoside hydrolase
family 13; 1.90A {Hordeum vulgare} PDB: 2x4c_A* 2y4s_A*
2y5e_A* 2x4b_A
Length = 884
Score = 27.8 bits (62), Expect = 1.7
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 90 LIALANGVPMILAG 103
++AL+ G+P AG
Sbjct: 672 MMALSQGIPFFHAG 685
>2ya0_A Putative alkaline amylopullulanase; hydrolase, glycoside hydrolase;
1.85A {Streptococcus pneumoniae} PDB: 2ya2_A*
Length = 714
Score = 27.3 bits (61), Expect = 2.0
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 88 FLLIALANGVPMILAG 103
L++ A G P I +G
Sbjct: 492 NLMVLTAQGTPFIHSG 507
>2e8y_A AMYX protein, pullulanase; multiple domain, beta-alpha-barrel,
alpha-amylase-family, HY; 2.11A {Bacillus subtilis} PDB:
2e8z_A* 2e9b_A*
Length = 718
Score = 27.3 bits (61), Expect = 2.1
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 90 LIALANGVPMILAG 103
+I LA GVP I +G
Sbjct: 555 IILLAQGVPFIHSG 568
>3faw_A Reticulocyte binding protein; TIM barrel, beta barrel, hydrolase,
cell WALL, peptidoglycan-anchor, secreted; 2.10A
{Streptococcus agalactiae COH1} PDB: 3fax_A*
Length = 877
Score = 27.1 bits (60), Expect = 2.2
Identities = 4/16 (25%), Positives = 8/16 (50%)
Query: 88 FLLIALANGVPMILAG 103
++I + G I +G
Sbjct: 605 NVMILTSQGTAFIHSG 620
>2fhf_A Pullulanase; multiple domain, beta-alpha-barrel,
alpha-amylase-family, complex with maltotetraose,
hydrolase; HET: GLC; 1.65A {Klebsiella aerogenes} SCOP:
b.1.18.2 b.1.18.2 b.3.1.3 b.71.1.1 c.1.8.1 PDB: 2fh6_A*
2fh8_A* 2fhb_A* 2fhc_A* 2fgz_A*
Length = 1083
Score = 26.6 bits (58), Expect = 4.5
Identities = 3/14 (21%), Positives = 5/14 (35%)
Query: 90 LIALANGVPMILAG 103
+ L G+ G
Sbjct: 865 TVMLGQGIAFDQQG 878
>3lk7_A UDP-N-acetylmuramoylalanine--D-glutamate ligase; agalacitae, PSI,
MCSG, structural genomics, midwest center for structural
genomics; HET: MSE; 1.50A {Streptococcus agalactiae}
Length = 451
Score = 26.0 bits (58), Expect = 5.4
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 77 ILSTGLPFIVSFLLIALANGVPMI----LAGRCVAGFCVGI 113
I + G+P+ + AL +P++ LA +GI
Sbjct: 77 IKNPGIPYNNPMVKKALEKQIPVLTEVELAYLVSESQLIGI 117
>1kfi_A Phosphoglucomutase 1; parafusin, phosphoprotein PP63, exocytosis,
isomerase; 2.40A {Paramecium tetraurelia} SCOP: c.84.1.1
c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1kfq_A
Length = 572
Score = 25.9 bits (57), Expect = 5.4
Identities = 8/45 (17%), Positives = 15/45 (33%), Gaps = 4/45 (8%)
Query: 60 GGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGR 104
L +G + I S + +A AN + + G+
Sbjct: 54 ELKPKNVLF--VGGDGRYFNR--QAIFSIIRLAYANDISEVHVGQ 94
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2,
structure initiative, northeast structural genomics
consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP:
b.40.4.5 b.40.4.16 PDB: 2r7f_A
Length = 469
Score = 25.7 bits (57), Expect = 6.4
Identities = 6/12 (50%), Positives = 6/12 (50%)
Query: 99 MILAGRCVAGFC 110
M LAG A F
Sbjct: 270 MTLAGWGTAIFA 281
>2x5o_A UDP-N-acetylmuramoylalanine--D-glutamate ligase; ATP-binding, cell
cycle, cell division, cell shape, cell WAL
biogenesis/degradation; HET: KCX VSV; 1.46A {Escherichia
coli} PDB: 2wjp_A* 2xpc_A* 2y1o_A* 2jff_A* 2jfh_A*
2uuo_A* 2uup_A* 2vtd_A* 2vte_A* 2jfg_A* 2y66_A* 2y67_A*
2y68_A* 4uag_A* 1e0d_A* 1uag_A* 1eeh_A* 3uag_A* 2uag_A*
Length = 439
Score = 25.6 bits (57), Expect = 7.4
Identities = 9/41 (21%), Positives = 14/41 (34%), Gaps = 4/41 (9%)
Query: 77 ILSTGLPFIVSFLLIALANGVPMI----LAGRCVAGFCVGI 113
+ S G+ L A G+ ++ L R V I
Sbjct: 69 VASPGIALAHPSLSAAADAGIEIVGDIELFCREAQAPIVAI 109
>1v5x_A PRA isomerase, phosphoribosylanthranilate isomerase; alpha-beta
barrel, TRPF, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
c.1.2.4
Length = 203
Score = 25.2 bits (56), Expect = 7.5
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 80 TGLPFIVSFLLIALANGVPMILAG 103
+G + ++ LA G +ILAG
Sbjct: 130 SGEAYPRAWAKPLLATGRRVILAG 153
>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 = 25.7 bits (56), Expect = 7.6
Identities = 17/115 (14%), Positives = 37/115 (32%), Gaps = 6/115 (5%)
Query: 2 KSAVLASLTVSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGG 61
+S ++ + + A+ +P Q + T +A I S
Sbjct: 22 RSYIIPFALLCSLFFLWAVANNLNDILLP---QFQQAFTLTNFQAGLIQSAFYFGYFIIP 78
Query: 62 MAGGPLIESLGRRTTILSTGLPFIVSFLLI---ALANGVPMILAGRCVAGFCVGI 113
+ G L++ L + I++ + + L A + L G + +G
Sbjct: 79 IPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYTLFLVGLFIIAAGLGC 133
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
0.321 0.138 0.399
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: 2,080,276
Number of extensions: 118750
Number of successful extensions: 278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 41
Length of query: 144
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,328,508
Effective search space: 255381972
Effective search space used: 255381972
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: 52 (24.1 bits)