RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15865
(156 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 = 35.4 bits (81), Expect = 0.005
Identities = 30/147 (20%), Positives = 41/147 (27%), Gaps = 67/147 (45%)
Query: 6 VLVLTYVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFLHWRSAAILNLL-----FPI 60
+L T + TQP A A L P
Sbjct: 1725 LLSAT---QFTQP---------ALTLM-----------------EKAAFEDLKSKGLIPA 1755
Query: 61 LALCALYFIPESPHWLISKYLPIGLS-----ALATSAKNM-------LLFSYGTTLG--L 106
A A G S ALA+ A M ++F G T+ +
Sbjct: 1756 DATFA------------------GHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV 1797
Query: 107 PTIAIPYLSYSIKAI-PYQTAGSGSLE 132
P + +Y + AI P + A S S E
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQE 1824
>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 = 30.7 bits (68), Expect = 0.12
Identities = 9/36 (25%), Positives = 12/36 (33%), Gaps = 13/36 (36%)
Query: 117 SIKAIPYQTAGSGSLEKPAPGQIAPDGPPKNALTTN 152
++K + SL K A D P AL
Sbjct: 21 ALKKL------QASL-KL----YADDSAP--ALAIK 43
>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION
channel, transport protein, casse protein; 2.00A {Homo
sapiens} PDB: 2onj_A* 2hyd_A
Length = 578
Score = 28.7 bits (65), Expect = 0.73
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 8 VLTYVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFLHWRSAAILNLLFPILALCALY 67
V+ V + L G+++ TI +S +F FL + +FP L
Sbjct: 124 VINDVEQTKDFILTGLMNIWLDCITIIIALSIMF---FLDVKLTLAALFIFPFYILTVYV 180
Query: 68 F 68
F
Sbjct: 181 F 181
>1m1c_A GAG protein, major coat protein; dsRNA virus structure, RNA-protein
interaction, mRNA decapping, L-A virus,
QUAI-equivalence; 3.50A {Saccharomyces cerevisiae virus
l-a} SCOP: e.42.1.1
Length = 680
Score = 28.4 bits (62), Expect = 1.0
Identities = 9/48 (18%), Positives = 17/48 (35%)
Query: 102 TTLGLPTIAIPYLSYSIKAIPYQTAGSGSLEKPAPGQIAPDGPPKNAL 149
+G+P PY+ + + A G+ A + G + L
Sbjct: 460 VVVGVPVACSPYMIFPVAAFDTANPYCGNFVIKAANKYLRKGAVYDKL 507
>2l9u_A Receptor tyrosine-protein kinase ERBB-3; transmenbrane dimer,
membrane protein, EGFR; NMR {Homo sapiens}
Length = 40
Score = 25.4 bits (55), Expect = 2.1
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 15 ITQPHLRGMLSATASMTTIFGTVSQLFLGSFLHWR 49
+ + HL L+ A + IF + G+FL+WR
Sbjct: 1 MGRTHLTMALTVIAGLVVIF----MMLGGTFLYWR 31
>2pgw_A Muconate cycloisomerase; enolase superfamily, octamer, small
metabolism, PSI-II, NYSGXRC, structural genomics, PR
structure initiative; 1.95A {Sinorhizobium meliloti}
Length = 384
Score = 27.3 bits (61), Expect = 2.6
Identities = 5/44 (11%), Positives = 12/44 (27%), Gaps = 5/44 (11%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKNMLLFSY 100
A+ + H + I A + + N+ +
Sbjct: 284 AAAVAEAAGLKICIHSSFT--TGITTCAEHHIGLAIPNLDDGNQ 325
>1tll_A Nitric-oxide synthase, brain; reductase module, FMN, FAD, NADP+,
oxidoreductase; HET: FMN FAD NAP; 2.30A {Rattus
norvegicus} SCOP: b.43.4.1 c.23.5.2 c.25.1.4
Length = 688
Score = 27.1 bits (60), Expect = 2.7
Identities = 13/72 (18%), Positives = 25/72 (34%), Gaps = 10/72 (13%)
Query: 8 VLTYVAEITQPHLRGMLSATASMTTIFGTVSQLF--------LGSFLHWRSAAILNLL-- 57
Y +IT P L AS+ T +L + ++ ++ +L
Sbjct: 352 AFKYYLDITTPPTPLQLQQFASLATNEKEKQRLLVLSKGLQEYEEWKWGKNPTMVEVLEE 411
Query: 58 FPILALCALYFI 69
FP + + A +
Sbjct: 412 FPSIQMPATLLL 423
>2wb7_A PT26-6P; extra chromosomal elements, unknown function; 2.60A
{Thermococcus SP}
Length = 526
Score = 27.1 bits (59), Expect = 3.0
Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 7/64 (10%)
Query: 75 WLISKYLPIGLSALATSA-------KNMLLFSYGTTLGLPTIAIPYLSYSIKAIPYQTAG 127
W+ K + L A T+A ++ G LP + L S K + YQ
Sbjct: 200 WVHDKDIDFTLKAETTTAWGHVTGTNDVATIDGGMLGSLPIKFLQSLDLSGKWVLYQNKY 259
Query: 128 SGSL 131
+G+L
Sbjct: 260 AGAL 263
>2gdq_A YITF; mandelate racemase/muconate lactonizing enzyme, TIM-barrel,
octamer, structural genomics, PSI; 1.80A {Bacillus
subtilis subsp} SCOP: c.1.11.2 d.54.1.1 PDB: 2gge_A
Length = 382
Score = 26.9 bits (60), Expect = 3.6
Identities = 11/89 (12%), Positives = 19/89 (21%), Gaps = 18/89 (20%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKNMLLFSYGTTLGLPTIAIPYLSY 116
L L + + S H + I + +
Sbjct: 279 CLQLARYFGVRASAHAYDG---SLSRLYALFAQACLPPWSKMKN--------DHIEPIEW 327
Query: 117 SIKAIPYQTAGSGSLEKPAPGQI-APDGP 144
+ P+ S K G + P G
Sbjct: 328 DVMENPFTDLVSLQPSK---GMVHIPKGK 353
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 26.4 bits (59), Expect = 4.2
Identities = 11/61 (18%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 9 LTY-VAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFLHWRSAAILNLLFPILALCALY 67
+TY ++ +++ +I G +F + W+ + IL +L PI+++
Sbjct: 128 ITYDSEQVASSSSGALITVVREGASIIGLFIMMF---YYSWQLSIILVVLAPIVSIAIRV 184
Query: 68 F 68
Sbjct: 185 V 185
>3rcy_A Mandelate racemase/muconate lactonizing enzyme-LI protein;
structural genomics, protein structure initiative; HET:
RIB; 1.99A {Roseovarius SP} PDB: 3t4w_A
Length = 433
Score = 26.1 bits (58), Expect = 5.2
Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKNMLLFSY 100
+ A+ +Y +PH P+ +A A S N+L+
Sbjct: 297 VAAMAEVYNAQMAPHLYAG---PVEWAANVHFAASIPNILMCES 337
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 25.8 bits (57), Expect = 7.8
Identities = 4/28 (14%), Positives = 12/28 (42%)
Query: 6 VLVLTYVAEITQPHLRGMLSATASMTTI 33
V ++ + + H + + A M ++
Sbjct: 83 VGAISLLPDAETMHEEAVYTNIAFMESV 110
>2hzg_A Mandelate racemase/muconate lactonizing enzyme/EN superfamily;
structural genomics, predicted mandelate racemase, PSI;
2.02A {Rhodobacter sphaeroides}
Length = 401
Score = 25.7 bits (57), Expect = 8.4
Identities = 7/44 (15%), Positives = 11/44 (25%), Gaps = 6/44 (13%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKNMLLFSY 100
+ I H S + LSA + + Y
Sbjct: 290 VADAAQARGITYVNHTFTS---HLALSASLQPFAGLEADRICEY 330
>4dxk_A Mandelate racemase / muconate lactonizing enzyme protein; enolase,
mandelate racemase subgroup, enzyme function initia EFI;
1.25A {Agrobacterium tumefaciens} PDB: 4dx3_A 2pod_A
Length = 400
Score = 25.6 bits (57), Expect = 8.7
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKN 94
I ++ + +P +PH P+ L A L+ +A N
Sbjct: 304 IASMAEAWHLPVAPHXCTG---PVVLCASTHLSLNAPN 338
>2qgy_A Enolase from the environmental genome shotgun sequencing of the
sargasso SEA; structural genomics, unknown function,
PSI-2; 1.80A {Environmental sample}
Length = 391
Score = 25.7 bits (57), Expect = 8.9
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 5/42 (11%)
Query: 60 ILALCALYFIPESPHWLISKYLPIGLSA---LATSAKNMLLF 98
I + I SPH S + + SA + +S N
Sbjct: 288 ISNEASNNGIFISPHCWNS--MSVSASAMLHVCSSIPNSEKA 327
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 0.136 0.407
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,253,554
Number of extensions: 121203
Number of successful extensions: 256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 254
Number of HSP's successfully gapped: 28
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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: 53 (24.2 bits)