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= psy3139
(708 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CTZ|A Chain A, Structure Of Human Cytosolic X-Prolyl Aminopeptidase
Length = 623
Score = 229 bits (583), Expect = 5e-60, Method: Compositional matrix adjust.
Identities = 177/680 (26%), Positives = 287/680 (42%), Gaps = 121/680 (17%)
Query: 59 YIIVNGDDHQVSIIPGNQGNSYVCTKTKQHGPWDKRLEYISGFTGESGQGVVTQTTAVLW 118
YII +GD HQ I P D R ++SGF G +G ++T+ A +W
Sbjct: 30 YIIPSGDAHQSEYI----------------APCDCRRAFVSGFDGSAGTAIITEEHAAMW 73
Query: 119 TEAKYWERADSELSGTEWTLCRTDFTGRLTAKSNQSGASPRNVATSFGYIQRSMTDKVVG 178
T+ +Y+ +A ++ + WTL +
Sbjct: 74 TDGRYFLQAAKQMD-SNWTLMK-------------------------------------- 94
Query: 179 FFGHVKSPNMNQWIATHAKYTDKIASDPLKWEFSEWLNLDNYLRAHGLQLNLLTENLVDS 238
G +P W+ + ++ DPL W + LR+ G L + ENLVD
Sbjct: 95 -MGLKDTPTQEDWLVSVLPEGSRVGVDPLIIPTDYWKKMAKVLRSAGHHLIPVKENLVDK 153
Query: 239 IWYPKPSLPPSVVFIHPLEYAGEPWENKVQSMKDFMSSKSVDVMVITALDQIAWLLNLRG 298
IW +P P + L+Y G W++KV ++ M+ ++V V+TALD+IAWL NLRG
Sbjct: 154 IWTDRPERPCKPLLTLGLDYTGISWKDKVADLRLKMAERNVMWFVVTALDEIAWLFNLRG 213
Query: 299 KDNPFSPLFKAYFVISTSLCVLYLPKNKI-TPVLRNYL---------GDIVIKPYDLVWT 348
D +P+F +Y +I +L++ ++I P ++ +L I + PY + +
Sbjct: 214 SDVEHNPVFFSYAIIGLETIMLFIDGDRIDAPSVKEHLLLDLGLEAEYRIQVHPYKSILS 273
Query: 349 DLPEFVRTGKCLYLPDEANFLLYAWMKNAETAGFQDDKGYHIEGYWYTWRTAVDRWSIDE 408
+L L A + E D Y + +
Sbjct: 274 ELKA-----------------LCADLSPREKVWVSDKASYAVS---------------ET 301
Query: 409 VPPLKLLTGP-SPVKDLKAYKNSAEAKGMRNSQIKDALVWVRLVHRIEKGIESGELWDEL 467
+P P +P+ KA KNSAE++GMR + IKDA+ L + +EK + G + E+
Sbjct: 302 IPKDHRCCMPYTPICIAKAVKNSAESEGMRRAHIKDAVALCELFNWLEKEVPKGGV-TEI 360
Query: 468 KVLECVDQLRGEHWSYIGNSFPPTAAHGTHATDAEYRPDAKTNVKIG-DDILRVSYGSQY 526
+ ++ R + ++ SFP ++ G Y P +TN + D++ + G+QY
Sbjct: 361 SAADKAEEFRRQQADFVDLSFPTISSTGPTGAIIHYAPVPETNRTLSLDEVYLIDSGAQY 420
Query: 527 LDGTTKVNAILHCGIPTPLQRSVYTAILKGLIALVTTQFLPGSSXXXXXXXXXXXXXXXX 586
DGTT V +H PT ++ +T +LKG IA+ F G+
Sbjct: 421 KDGTTDVTRTMHFETPTAYEKECFTYVLKGHIAVSAAVFPTGTKGHLLDSFARSALWDSG 480
Query: 587 XDYRPQRVHSIGEFLLVQED---------FNSTLNINFFGVVEPEYLD---CGIKIGQVI 634
DY H +G FL V E + L EP Y + GI+I V+
Sbjct: 481 LDYLHGTGHGVGSFLNVHEGPCGISYKTFSDEPLEAGMIVTDEPGYYEDGAFGIRIENVV 540
Query: 635 QVVPAYRERY-------MTMEVRSLFPFESRLIDTSQLEPHEIRWINEFHATVRYVIGEQ 687
VVP + +Y +T+E +L P ++++ID L E W+N +H T R VIG++
Sbjct: 541 LVVPV-KTKYNFNNRGSLTLEPLTLVPIQTKMIDVDSLTDKECDWLNNYHLTCRDVIGKE 599
Query: 688 LVGRGLHAEYRTLIKKTDPL 707
L +G LI++T P+
Sbjct: 600 LQKQGRQEALEWLIRETQPI 619
>pdb|4FKC|A Chain A, Recombinant Prolidase From Thermococcus Sibiricus
Length = 377
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 49/259 (18%), Positives = 101/259 (38%), Gaps = 45/259 (17%)
Query: 301 NPFSPLFKAYFVISTSLCVLYLPKNKI-TPVLRNYLGDIVI-----KPYDLVWTDLPEFV 354
NP L + + +I S +L ++ L + G++V+ PY + T + E
Sbjct: 49 NPLGTLERLFVLILPSEGLLTAIAPRLYEKELEEFNGEVVLWSDSENPYKIFATKIKETF 108
Query: 355 RTGKCLYLPDEANFLLYAWMKNAETAGFQDDKGYHIEGYWYTWRTAVDRWSIDEVPPLKL 414
+ G+ L + D G + + D++S+ + P+
Sbjct: 109 KEGEKLLIDDTMPV-----------------------GVFLKAKDIFDKYSLHPISPV-- 143
Query: 415 LTGPSPVKDLKAYKNSAEAKGMRNSQIKDALVWVRLVHRIEKGIESGELWDELKVLECVD 474
+ +L+ K+ E K + K A + ++ +R +G G+ EL ++
Sbjct: 144 ------ISELREIKDKDEIKAHK----KAAEIVDKVFYRFIEGKLEGKSEREL--ANRIE 191
Query: 475 QLRGEHWSYIGNSFPPTAAHGTHATDAEYRPDAKTNVKIGDDILRVSYGSQYLDGTTKVN 534
+ + SF P A G + + +RP + ++ GD ++ YG++YL + V
Sbjct: 192 YMIKNEFGADDVSFEPIVASGPNGANPHHRPSHR-KIRKGDVVI-FDYGAKYLGYCSDVT 249
Query: 535 AILHCGIPTPLQRSVYTAI 553
+ G P+ + VY +
Sbjct: 250 RTVVVGPPSEEVKKVYEIV 268
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli
Length = 268
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 26/88 (29%)
Query: 328 TPVLRNYLGDIVIKPYDLVW----TDLPEFVRTGKCLYLPDEANFL--LYAW-------M 374
PVL +GD+ I P DL + ++RTGKC +LP+E ++ L +W
Sbjct: 144 NPVL--IMGDMNISPTDLDIGIGEENRKRWLRTGKCSFLPEEREWMDRLMSWGLVDTFRH 201
Query: 375 KNAETA-----------GFQDDKGYHIE 391
N +TA GF D++G I+
Sbjct: 202 ANPQTADRFSWFDYRSKGFDDNRGLRID 229
>pdb|2O8S|A Chain A, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120.
pdb|2O8S|B Chain B, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120
Length = 323
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 137 TLCRTDFTGRLTAKSNQSGASPRNVATSFGYIQRSMTDKVVGFFGHVKSPNMNQWIATHA 196
TLCR T L + SN+SG S + TS+ I + + + K P++ +
Sbjct: 33 TLCRQGRTCALKSGSNESGGSVTSTYTSYRLISQDIGKSLERV---SKQPDVARETEY-- 87
Query: 197 KYTDKIASDPLKWEFSEWLNLDNY-LRAHGLQ 227
Y +KI S +F L NY L+AHGL+
Sbjct: 88 -YREKIGSVKSIDDFXADTRLYNYALKAHGLE 118
>pdb|4J0N|A Chain A, Crystal Structure Of A Manganese Dependent Isatin
Hydrolase
pdb|4J0N|B Chain B, Crystal Structure Of A Manganese Dependent Isatin
Hydrolase
Length = 263
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 122 KYWERADSELSGTEWTLCRTDFTGRLTAKS---NQSGASPRNVATSFGYIQRSMTDKVVG 178
K WE E+ EW + RTD+ R ++ N P + + I+ ++ K+VG
Sbjct: 130 KAWEAEHGEIGAGEWVVMRTDWDKRAGDEAAFLNADETGPHSPGPTPDAIEYLLSKKIVG 189
Query: 179 F 179
+
Sbjct: 190 W 190
>pdb|2UVH|A Chain A, Structure Of A Periplasmic Oligogalacturonide Binding
Protein From Yersinia Enterocolitica In Complex With
Saturated Digalacturonic Acid
pdb|2UVI|A Chain A, Structure Of A Periplasmic Oligogalacturonide Binding
Protein From Yersinia Enterocolitica In Complex With
4,5- Unsaturated Digalacturonic Acid
pdb|2UVJ|A Chain A, Structure Of A Periplasmic Oligogalacturonide Binding
Protein From Yersinia Enterocolitica In Complex With
Trigalacturonic Acid
Length = 408
Score = 28.9 bits (63), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 35/159 (22%), Positives = 64/159 (40%), Gaps = 18/159 (11%)
Query: 390 IEGYW---YTWRTAVDRWSIDEVPPLKLLTGPSPV----KDLKAYKNSAE--AKGMRNSQ 440
I G W Y W + + ++S + P KL+ GP P+ KD + A+ + G
Sbjct: 237 INGEWAGTYMWNSTITKYSDNLTKPAKLVLGPYPMLPGAKDAGLFFKPAQMLSIGKSTKH 296
Query: 441 IKDALVWVRLVHRIEKGIESGELWDELKV-LECVDQLRGEHWSYIGNSFPPTAAHGT--- 496
+++ + + + ++G+E+ L + + V QLR I + P A
Sbjct: 297 PQESAMLINFLLNSKEGVEALGLERGVPLSATAVTQLRAS--GVIKDEDPSVAGLNMALE 354
Query: 497 ---HATDAEYRPDAKTNVKIGDDILRVSYGSQYLDGTTK 532
T + Y D + GD I + YG + + T +
Sbjct: 355 LPHKMTTSPYFDDPQIVSLFGDAIQYIDYGQKTVQETAE 393
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
0.319 0.136 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,977,326
Number of Sequences: 62578
Number of extensions: 928539
Number of successful extensions: 1799
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1793
Number of HSP's gapped (non-prelim): 9
length of query: 708
length of database: 14,973,337
effective HSP length: 106
effective length of query: 602
effective length of database: 8,340,069
effective search space: 5020721538
effective search space used: 5020721538
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)