BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 003697
(802 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A01|A Chain A, Crystal Structure Of The H-Translocating Pyrophosphatase
pdb|4A01|B Chain B, Crystal Structure Of The H-Translocating Pyrophosphatase
Length = 766
Score = 394 bits (1011), Expect = e-109, Method: Compositional matrix adjust.
Identities = 267/747 (35%), Positives = 383/747 (51%), Gaps = 81/747 (10%)
Query: 88 WVLSKDEGPPEM------AQISDAIRDGAEGFFRTQYGTISKMACLLALVIFCIYLFR-- 139
+++ ++EG + A+I +AI +GA F T+Y + A++IF ++L
Sbjct: 57 YLIEEEEGINDHNVVVKCAEIQNAISEGATSFLFTEYKYVGIFMVAFAILIF-LFLGSVE 115
Query: 140 --NTTPQQEASGIGRS-----NSACITVAAFLLGALCSGIAGYVGMWXXXXXXXXXXXXX 192
+T+PQ + ++ +A + +FLLG + S ++G++GM
Sbjct: 116 GFSTSPQACSYDKTKTCKPALATAIFSTVSFLLGGVTSLVSGFLGMKIATYANARTTLEA 175
Query: 193 XXXXXEALQIAVRAGGFSXXXXXXXXXXXXXXLYATFYVWLGVDTPGSMKVTDLPLLLVG 252
+A A R+G F ++ G D G + + G
Sbjct: 176 RKGVGKAFITAFRSGAVMGFLLAANGLLVLYIAINLFKIYYGDDWGGLFEA------ITG 229
Query: 253 YGFGASFVALFAQLGGGIYTKAADVGADLVGKVEQGIPEDDPRNPAVIADLVGDNVGDCA 312
YG G S +ALF ++GGGIYTKAADVGADLVGKVE+ IPEDDPRNPAVIAD VGDNVGD A
Sbjct: 230 YGLGGSSMALFGRVGGGIYTKAADVGADLVGKVERNIPEDDPRNPAVIADNVGDNVGDIA 289
Query: 313 ARGADLFXXXXXXXXXXMILGGTMVQRCKLENPSGFILFPLVVHSFXXXXXXXXXXXXXX 372
G+DLF +++ + L + +L+PL+V S
Sbjct: 290 GMGSDLFGSYAESSCAALVVAS--ISSFGLNHELTAMLYPLIVSSVGILVCLLTTLFATD 347
Query: 373 XXXXXXKAPIEDPMAILQKGYSVTVVL-----AVLTFGA-STRWLLYT---EQAPSAWLN 423
IE L+K ++ VL AV++F A T + ++ ++ +W
Sbjct: 348 FFEIKAVKEIEPA---LKKQLVISTVLMTIGVAVVSFVALPTSFTIFNFGVQKDVKSWQL 404
Query: 424 FALCGLVGIITAYIFVWITKYYTDYKHEPVRALALSSSTGHGTNIIAGVSLGLESTAPPV 483
F LC VG+ I ++T+YYT + PV+ +A S TG TN+I G++LG +S P+
Sbjct: 405 F-LCVAVGLWAGLIIGFVTEYYTSNAYSPVQDVADSCRTGAATNVIFGLALGYKSVIIPI 463
Query: 484 LXXXXXXXXAYWLGQTSGLVDESGNPIGGLFGTAVATMGMLSTAAYVLTMDMFGPIADNA 543
++ ++G AVA +GMLST A L +D +GPI+DNA
Sbjct: 464 FAIAISIFVSF--------------TFAAMYGIAVAALGMLSTIATGLAIDAYGPISDNA 509
Query: 544 GGIVEMSQQPESVREITDVLDAVGNTTKATTKXXXXXXXXXXXXXXXXXYMDEVATFAQE 603
GGI EM+ +RE TD LDA GNTT A K ++ ++
Sbjct: 510 GGIAEMAGMSHRIRERTDALDAAGNTTAAIGKGFAIGSAALVSLALFGAFV------SRA 563
Query: 604 PFKQVDIAIPEVFVGGLLGSMLIFLFSGWACSAVGKTAQEVVNEVRRQFIERPGIMEYKE 663
VD+ P+VF+G ++G+ML + FS +VG A ++V EVRRQF PG+ME
Sbjct: 564 SITTVDVLTPKVFIGLIVGAMLPYWFSAMTMKSVGSAALKMVEEVRRQFNTIPGLMEGTA 623
Query: 664 KPDYARCVAIVASASLREMIKPGALAIISPLVIGLLF---RILGYYTGHXXXXXXXXXXX 720
KPDYA CV I AS++EMI PGAL +++PLV+G+LF + G G
Sbjct: 624 KPDYATCVKISTDASIKEMIPPGALVMLTPLVVGILFGVETLSGVLAG------------ 671
Query: 721 XMFATVSGILMALFLNTAGGAWDNAKKFIETGA------LGGKGSDTHKAAVTGDTVGDP 774
+ VSG+ +A+ + GGAWDNAKK+IE GA LG KGSD HKAAV GDT+GDP
Sbjct: 672 ---SLVSGVQIAISASNTGGAWDNAKKYIEAGASEHARSLGPKGSDCHKAAVIGDTIGDP 728
Query: 775 FKDTAGPSLHVLIKMLATITLVMAPIF 801
KDT+GPSL++LIK++A +LV AP F
Sbjct: 729 LKDTSGPSLNILIKLMAVESLVFAPFF 755
>pdb|4AV3|A Chain A, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase With Metal Ions In
Active Site
pdb|4AV3|B Chain B, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase With Metal Ions In
Active Site
pdb|4AV6|A Chain A, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase At 4 A In Complex With
Phosphate And Magnesium
pdb|4AV6|B Chain B, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase At 4 A In Complex With
Phosphate And Magnesium
Length = 735
Score = 353 bits (905), Expect = 3e-97, Method: Compositional matrix adjust.
Identities = 259/759 (34%), Positives = 356/759 (46%), Gaps = 109/759 (14%)
Query: 89 VLSKDEGPPEMAQISDAIRDGAEGFFRTQYGTISKMACLLALVIFCIYLFRNTTPQQEAS 148
V+ K EG M +IS IR GA+ F + I K+A ++A+++ TT Q
Sbjct: 34 VVRKPEGTERMKEISSYIRSGADSFLAHETKAIFKVAIVIAILLMIF-----TTWQ---- 84
Query: 149 GIGRSNSACITVAAFLLGALCSGIAGYVGMWXXXXXXXXXXXXXXXXXX--EALQIAVRA 206
T AFLLGA+ S AG VGM AL++A +
Sbjct: 85 ----------TGVAFLLGAVMSASAGIVGMKMATRANVRVAEAARTTKKIGPALKVAYQG 134
Query: 207 GGFSXXXXXXXXXXXXXXLYATFYVWLG-VDTPG------SMKVTDLPLLLVGYGFGASF 259
G +Y F W+G VD + + + GY G S
Sbjct: 135 GSVMGLSVGGFALLGLVLVYLIFGKWMGQVDNLNIYTNWLGINFVPFAMTVSGYALGCSI 194
Query: 260 VALFAQLGGGIYTKAADVGADLVGKVEQGIPEDDPRNPAVIADLVGDNVGDCAARGADLF 319
+A+F ++GGG+YTKAAD+ ADLVGK E +PEDDPRNPA IAD VGDNVGD A GADL
Sbjct: 195 IAMFDRVGGGVYTKAADMAADLVGKTELNLPEDDPRNPATIADNVGDNVGDVAGLGADLL 254
Query: 320 XXXXXXXXXXMIL------------GGTMVQRCKLENPSGFILFPLVVHSFXXXXXXXXX 367
+IL G +V + E I +P+
Sbjct: 255 ESFVGAIVSSIILASYMFPIYVQKIGENLVHQVPKETIQALISYPIFF------ALVGLG 308
Query: 368 XXXXXXXXXXXKAPIEDPMAILQKGYSVTVVLAVLTFGASTRWLLYTEQ----------A 417
K P ++P L + +L V+ T + L Q A
Sbjct: 309 CSMLGILYVIVKKPSDNPQRELNISLWTSALLTVVLTAFLTYFYLKDLQGLDVLGFRFGA 368
Query: 418 PSAWLNFALCGLVGIITAYIFVWITKYYTDYKHEPVRALALSSSTGHGTNIIAGVSLGLE 477
S W + ++GI + + + +YYT Y+++P + L SS G G I G+SLG++
Sbjct: 369 ISPWFS----AIIGIFSGILIGFWAEYYTSYRYKPTQFLGKSSIEGTGMVISNGLSLGMK 424
Query: 478 STAPPVLXXXXXXXXAYWLGQTSGLVDESGNPIGGLFGTAVATMGMLSTAAYVLTMDMFG 537
S PP L A + GL+G A+A +GMLS A +++D +G
Sbjct: 425 SVFPPTLTLVLGILFADYFA--------------GLYGVAIAALGMLSFVATSVSVDSYG 470
Query: 538 PIADNAGGIVEMSQQPESVREITDVLDAVGNTTKATTKXXXXXXXXXXXXXXXXXYMDEV 597
PIADNAGGI EM + VR+ITD LDAVGNTT A K YM
Sbjct: 471 PIADNAGGISEMCELDPEVRKITDHLDAVGNTTAAIGKGFAIGSAIFAALSLFASYM--- 527
Query: 598 ATFAQEPFKQVDIAIP------------EVFVGGLLGSMLIFLFSGWACSAVGKTAQEVV 645
F+Q DI P V G LLG+ + + FSG+ SAV K A ++V
Sbjct: 528 --FSQ--ISPSDIGKPPSLVLLLNMLDARVIAGALLGAAITYYFSGYLISAVTKAAMKMV 583
Query: 646 NEVRRQFIERPGIMEYKEKPDYARCVAIVASASLREMIKPGALAIISPLVIGLLFRILGY 705
+E+RRQ E PG++E K KPDY RC+ I + +L++M P +AI++PLV G L
Sbjct: 584 DEIRRQAREIPGLLEGKAKPDYNRCIEITSDNALKQMGYPAFIAILTPLVTGFLLG--AE 641
Query: 706 YTGHXXXXXXXXXXXXMFATV-SGILMALFLNTAGGAWDNAKKFIETGALG--GKGSDTH 762
+ G + TV SG ++A+ +GGAWDNAKK++E G L GKGS+ H
Sbjct: 642 FVGG-----------VLIGTVLSGAMLAILTANSGGAWDNAKKYLEAGNLEGYGKGSEPH 690
Query: 763 KAAVTGDTVGDPFKDTAGPSLHVLIKMLATITLVMAPIF 801
KA V GDTVGDP KDT GPSL +LIK+++ ++++ IF
Sbjct: 691 KALVIGDTVGDPLKDTVGPSLDILIKIMSVVSVIAVSIF 729
>pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
pdb|3QX3|B Chain B, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
Length = 803
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 5/39 (12%)
Query: 612 IPEVFVGGLLGSMLIFLFSGWACSAVGKTAQEVVNEVRR 650
IP V + G G + +GWAC A+E+VN VRR
Sbjct: 443 IPMVLINGAEG-----IGTGWACKLPNYDAREIVNNVRR 476
>pdb|2DKK|A Chain A, Structure/function Studies Of Cytochrome P450 158a1 From
Streptomyces Coelicolor A3(2)
Length = 411
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 44/112 (39%), Gaps = 19/112 (16%)
Query: 607 QVDIAIPEVFVGGLLGSMLIFLFSGWACSAV----------------GKTAQEVVNEVRR 650
+ D + E+ G L + + GWA A + Q + +
Sbjct: 28 EFDPVLAELMREGPLTRVRLPHGEGWAWLATRYDDVKAITNDPRFGRAEVTQRQITRLAP 87
Query: 651 QFIERPGIMEYKEKPDYARCVAIVASA---SLREMIKPGALAIISPLVIGLL 699
F RPG + + ++PD+ R VA A + ++P A I+ LV G+L
Sbjct: 88 HFKPRPGSLAFADQPDHNRLRRAVAGAFTVGATKRLRPRAQEILDGLVDGIL 139
>pdb|2NZ5|A Chain A, Structure And Function Studies Of Cytochrome P450 158a1
From Streptomyces Coelicolor A3(2)
pdb|2NZ5|B Chain B, Structure And Function Studies Of Cytochrome P450 158a1
From Streptomyces Coelicolor A3(2)
pdb|2NZA|A Chain A, Structure And Function Studies Of Cytochrome P450 158a1
From Streptomyces Coelicolor A3(2)
pdb|2NZA|B Chain B, Structure And Function Studies Of Cytochrome P450 158a1
From Streptomyces Coelicolor A3(2)
Length = 413
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 639 KTAQEVVNEVRRQFIERPGIMEYKEKPDYARCVAIVASA---SLREMIKPGALAIISPLV 695
+ Q + + F RPG + + ++PD+ R VA A + ++P A I+ LV
Sbjct: 76 EVTQRQITRLAPHFKPRPGSLAFADQPDHNRLRRAVAGAFTVGATKRLRPRAQEILDGLV 135
Query: 696 IGLL 699
G+L
Sbjct: 136 DGIL 139
>pdb|2W1O|A Chain A, Nmr Structure Of Dimerization Domain Of Human Ribosomal
Protein P2
pdb|2W1O|B Chain B, Nmr Structure Of Dimerization Domain Of Human Ribosomal
Protein P2
pdb|2LBF|B Chain B, Solution Structure Of The Dimerization Domain Of Human
Ribosomal Protein P1P2 HETERODIMER
Length = 70
Score = 29.3 bits (64), Expect = 8.4, Method: Composition-based stats.
Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 262 LFAQLGGGIYTKAADVGADLVGKVEQGIPEDDPRNPAVIADLVGDNVGDCAARG 315
L A LGG A D+ L GI DD R VI++L G N+ D A+G
Sbjct: 9 LLAALGGNSSPSAKDIKKILD---SVGIEADDDRLNKVISELNGKNIEDVIAQG 59
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.140 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,234,777
Number of Sequences: 62578
Number of extensions: 733931
Number of successful extensions: 1395
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1378
Number of HSP's gapped (non-prelim): 11
length of query: 802
length of database: 14,973,337
effective HSP length: 107
effective length of query: 695
effective length of database: 8,277,491
effective search space: 5752856245
effective search space used: 5752856245
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)