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= psy47
(1001 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A3L|A Chain A, X-Ray Structure Of Adenosine 5'-Monophosphate Deaminase
From Arabidopsis Thaliana In Complex With Coformycin
5'-Phosphate
Length = 701
Score = 437 bits (1124), Expect = e-122, Method: Compositional matrix adjust.
Identities = 222/406 (54%), Positives = 274/406 (67%), Gaps = 23/406 (5%)
Query: 552 FARIIKVDTHIHAASCMNQKHLLRFIKKTLKNHTDEVVTKDRTGQTMTLRQVFQSMNLTS 611
F + KVDTH+H ++CMNQKHLLRFIK L+ DEVV R G +TLR+VF+S++LT
Sbjct: 244 FYNVRKVDTHVHHSACMNQKHLLRFIKSKLRKEPDEVVIF-RDGTYLTLREVFESLDLTG 302
Query: 612 YDLTVDMLDVHADRNTFHRFDKFNAKYNPIGESRLREVFLKTDNYLGGTYFARIIKEVAA 671
YDL VD+LDVHAD++TFHRFDKFN KYNP G+SRLRE+FLK DN + G + I K+V +
Sbjct: 303 YDLNVDLLDVHADKSTFHRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLGEITKQVFS 362
Query: 672 DLEESKYQNAELRLSIYGKSEDEWDKLATWAIESNVYSNNIRWLIQIPRLYDIFKSNKLI 731
DLE SKYQ AE R+SIYG+ EWD+LA+W + +++YS N+ WLIQ+PRLY+I+K ++
Sbjct: 363 DLEASKYQMAEYRISIYGRKMSEWDQLASWIVNNDLYSENVVWLIQLPRLYNIYKDMGIV 422
Query: 732 NNFQEILQNIFKPLFEVTNDSSSHPHLHKFLQYVIGFDSVDDESKPE-NPLFDADVLTPP 790
+FQ IL NIF PLFE T D SHP LH FL+ V+GFD VDDESKPE P + TP
Sbjct: 423 TSFQNILDNIFIPLFEATVDPDSHPQLHVFLKQVVGFDLVDDESKPERRPT--KHMPTPA 480
Query: 791 QWNLEENPCXXXXXXXXXXNLTVLNQSTGRRSRRETNLQPGAYKA---DALTSKFPNAQD 847
QW NP NL VLN+ + L+P + +A D L + F
Sbjct: 481 QWTNAFNPAFSYYVYYCYANLYVLNKLRESKGMTTITLRPHSGEAGDIDHLAATFLTCHS 540
Query: 848 IYDHEITIR---------------IAMSPLSNNSLFLNYHRNPLPEYLARGLVVSLSTDD 892
I H I +R +AMSPLSNNSLFL+YHRNP P + RGL VSLSTDD
Sbjct: 541 I-AHGINLRKSPVLQYLYYLAQIGLAMSPLSNNSLFLDYHRNPFPVFFLRGLNVSLSTDD 599
Query: 893 PLQFHFTKEPLMEEYSIAAQVWKLSSCDMCELARNSVLMSGFPHGV 938
PLQ H TKEPL+EEYSIAA VWKLS+CD+CE+ARNSV SGF H +
Sbjct: 600 PLQIHLTKEPLVEEYSIAASVWKLSACDLCEIARNSVYQSGFSHAL 645
Score = 169 bits (429), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 74/131 (56%), Positives = 100/131 (76%)
Query: 317 NLSNEKSDRNTFHRFDKFNAKYNPIGESRLREVFLKTDNYLGGTYFARIIKEVAADLEES 376
+L + +D++TFHRFDKFN KYNP G+SRLRE+FLK DN + G + I K+V +DLE S
Sbjct: 308 DLLDVHADKSTFHRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLGEITKQVFSDLEAS 367
Query: 377 KYQNAELRLSIYGKSEDEWDKLATWAIESNVYSNNIRWLIQIPRLYDIFKSNKLINNFQE 436
KYQ AE R+SIYG+ EWD+LA+W + +++YS N+ WLIQ+PRLY+I+K ++ +FQ
Sbjct: 368 KYQMAEYRISIYGRKMSEWDQLASWIVNNDLYSENVVWLIQLPRLYNIYKDMGIVTSFQN 427
Query: 437 ILQNIFKPLFE 447
IL NIF PLFE
Sbjct: 428 ILDNIFIPLFE 438
Score = 153 bits (387), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 80/159 (50%), Positives = 106/159 (66%), Gaps = 9/159 (5%)
Query: 407 VYSNNIRWLI--QIPRLYDIFKSNKLINNFQEILQNIFKP------LFEVDTHIHAASCM 458
+ + NIR L ++ L F + ++N +E L P + +VDTH+H ++CM
Sbjct: 201 IAAGNIRTLCHRRLVLLEQKFNLHLMLNADKEFLAQKSAPHRDFYNVRKVDTHVHHSACM 260
Query: 459 NQKHLLRFIKKTLKNHTDEVVTKDRTGQTMTLRQVFQSMNLTSYDLTVDMLDVHADRNTF 518
NQKHLLRFIK L+ DEVV R G +TLR+VF+S++LT YDL VD+LDVHAD++TF
Sbjct: 261 NQKHLLRFIKSKLRKEPDEVVIF-RDGTYLTLREVFESLDLTGYDLNVDLLDVHADKSTF 319
Query: 519 HRFDKFNAKYNPIGESRLREVFLKTDNYLGGTYFARIIK 557
HRFDKFN KYNP G+SRLRE+FLK DN + G + I K
Sbjct: 320 HRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLGEITK 358
Score = 36.6 bits (83), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 951 HVFEFYNGVYHVYKNQEALAKGEAMNFPYPDLAEFVTNMHRLCAMIADG 999
H FE +GV HV+ N++A E + FP D F T++H + +IA G
Sbjct: 160 HCFEMQDGVVHVFANKDA---KEDL-FPVADATAFFTDLHHVLKVIAAG 204
>pdb|3RYS|A Chain A, The Crystal Structure Of Adenine Deaminase (Aaur1117) From
Arthrobacter Aurescens
pdb|3RYS|B Chain B, The Crystal Structure Of Adenine Deaminase (Aaur1117) From
Arthrobacter Aurescens
Length = 343
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 5/77 (6%)
Query: 855 IRIAMSPLSNNSLFL--NYHRNPLPEYLARGLVVSLSTDDPLQFHFTKEPLMEEYSIAAQ 912
+ + + PLSN L +PLPE LA GL V +++DDP F + E+ +
Sbjct: 242 VPLTVCPLSNVRLRAVDKLADHPLPEMLAIGLNVCVNSDDPAYFGGYVDDNFEQL---VK 298
Query: 913 VWKLSSCDMCELARNSV 929
V + S + LA NS+
Sbjct: 299 VLEFSVPEQATLAANSI 315
>pdb|3FK4|A Chain A, Crystal Structure Of Rubisco-Like Protein From Bacillus
Cereus Atcc 14579
pdb|3FK4|B Chain B, Crystal Structure Of Rubisco-Like Protein From Bacillus
Cereus Atcc 14579
Length = 414
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 59/126 (46%), Gaps = 10/126 (7%)
Query: 8 KEDLIRSESPQFN-GPKLASSYPGSSGNLLAGEELRIPEL--PNEISAPYEVPQFPIEQI 64
K +I+ E P N P L + + G L E+++ +L +E+ + P+F I+ I
Sbjct: 72 KRGIIKIEYPLLNFSPDLPAILTTTFGKLSLDGEVKLIDLTFSDELKKHFPGPKFGIDGI 131
Query: 65 EKKLAIQQR------MSQLLAKDLEDRKSQYEPSLVPGVEDIETTAVIDEHDFVPHFQRV 118
L + R ++ +++ K+Q + GV+ ++ ++ E+ P +R+
Sbjct: 132 RNLLQVHDRPLLMSIFKGMIGRNIGYLKTQLRDQAIGGVDIVKDDEILFENALTPLTKRI 191
Query: 119 AISGED 124
+SG++
Sbjct: 192 -VSGKE 196
>pdb|4A1K|A Chain A, Ykud L,D-Transpeptidase
Length = 165
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 1 MCTHGIDKEDLIRSESPQF--NGPKLASSYPGSSGNLLAGEELRIPELPNEISAPYEV 56
M T+ + + D + S + F + L + P L AG+ + IP LP+ + PY +
Sbjct: 2 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHI 59
>pdb|4A1I|A Chain A, Ykud From B.Subtilis
pdb|4A1I|B Chain B, Ykud From B.Subtilis
pdb|4A1I|C Chain C, Ykud From B.Subtilis
pdb|4A1I|D Chain D, Ykud From B.Subtilis
pdb|4A1I|E Chain E, Ykud From B.Subtilis
pdb|4A1I|F Chain F, Ykud From B.Subtilis
pdb|4A1I|G Chain G, Ykud From B.Subtilis
pdb|4A1I|H Chain H, Ykud From B.Subtilis
pdb|4A1J|A Chain A, Ykud L,D-Transpeptidase From B.Subtilis
pdb|4A1J|B Chain B, Ykud L,D-Transpeptidase From B.Subtilis
Length = 165
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 1 MCTHGIDKEDLIRSESPQF--NGPKLASSYPGSSGNLLAGEELRIPELPNEISAPYEV 56
M T+ + + D + S + F + L + P L AG+ + IP LP+ + PY +
Sbjct: 2 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHI 59
>pdb|4GR2|A Chain A, Structure Of Atrbcx1 From Arabidopsis Thaliana.
pdb|4GR2|B Chain B, Structure Of Atrbcx1 From Arabidopsis Thaliana
Length = 128
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 38/82 (46%), Gaps = 11/82 (13%)
Query: 338 YNPIGESRLREVFLKTDNYLGGTYFARIIKEVAADLEESKYQNAELRL----SIYGKSED 393
YNP LRE FL T++ G F + S++ N LR+ S Y K++
Sbjct: 38 YNPEAYMELRE-FLDTNSVSDGDKFLATLMR-----RSSRHMNLALRILEVRSAYAKNDF 91
Query: 394 EWDKLATWAIESNVYSNNIRWL 415
EWD + A + NV +N R +
Sbjct: 92 EWDNMKRLAFK-NVDDSNTRLM 112
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 38/82 (46%), Gaps = 11/82 (13%)
Query: 638 YNPIGESRLREVFLKTDNYLGGTYFARIIKEVAADLEESKYQNAELRL----SIYGKSED 693
YNP LRE FL T++ G F + S++ N LR+ S Y K++
Sbjct: 38 YNPEAYMELRE-FLDTNSVSDGDKFLATLMR-----RSSRHMNLALRILEVRSAYAKNDF 91
Query: 694 EWDKLATWAIESNVYSNNIRWL 715
EWD + A + NV +N R +
Sbjct: 92 EWDNMKRLAFK-NVDDSNTRLM 112
>pdb|3S8M|A Chain A, The Crystal Structure Of Fabv
Length = 422
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 127 GVPAEDLEQASRLLVEALHIRDRYMDISSQTFPQVTARFLREMDNVASLPH 177
G PAE EQ +RL ++ +RD D +PQVT L E+ + A H
Sbjct: 342 GQPAEVDEQ-NRLRLDDWELRDDVQDACKALWPQVTTENLFELTDYAGYKH 391
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
0.318 0.133 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,399,743
Number of Sequences: 62578
Number of extensions: 1323468
Number of successful extensions: 2808
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 2784
Number of HSP's gapped (non-prelim): 32
length of query: 1001
length of database: 14,973,337
effective HSP length: 108
effective length of query: 893
effective length of database: 8,214,913
effective search space: 7335917309
effective search space used: 7335917309
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)