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= 007568
(598 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EPL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Gh3.11 (Jar1) In
Complex With Ja-Ile
Length = 581
Score = 568 bits (1465), Expect = e-162, Method: Compositional matrix adjust.
Identities = 271/580 (46%), Positives = 393/580 (67%), Gaps = 19/580 (3%)
Query: 20 IIRWFEYISENAGEVQRETLRRILEQNYDVEYLKKRLGDTKIQDMDACEMETLYTSLVPL 79
+I F+ ++ NA +VQ++TL+ IL +N YL+ G + +A + E + S+VPL
Sbjct: 19 VIDEFDEMTRNAHQVQKQTLKEILLKNQSAIYLQN-CG----LNGNATDPEEAFKSMVPL 73
Query: 80 ASHADLEPYIQRIADGDTASLLTQEPITKLSLSSGTTEGRQKYVPFTKHSSQTTLQIFRL 139
+ +LEPYI+R+ DGDT+ +LT P+ +SLSSGT++GR K++PFT + TLQ+FR
Sbjct: 74 VTDVELEPYIKRMVDGDTSPILTGHPVPAISLSSGTSQGRPKFIPFTDELMENTLQLFRT 133
Query: 140 AAAYRSRVYPIREGGRILEFIYSSKQFXXXXXXXXXXXXXHYYASEEFKIKQEKTKSFTC 199
A A+R+R +PI + G+ L+FI+SSKQ+ + Y + FK + S +C
Sbjct: 134 AFAFRNRDFPIDDNGKALQFIFSSKQYISTGGVPVGTATTNVYRNPNFKAGMKSITSPSC 193
Query: 200 SPEEVISSGEYKQSTYCHLLLGLFFSDQVEFITSTFAYSIVQAFTAFEECWQDICIDVRE 259
SP+EVI S + Q+ YCHLL G+ F DQV+++ + FA+ +V AF FE+ W++I D+++
Sbjct: 194 SPDEVIFSPDVHQALYCHLLSGILFRDQVQYVFAVFAHGLVHAFRTFEQVWEEIVTDIKD 253
Query: 260 GSLSSSRITLPKMRKAVLDTISPKPYLASKIEVACKKLESLDWFGLVPKLWPNAKYVYSI 319
G LS+ RIT+P +R A+ ++P P LA I C L +W+GL+P L+PNAKYVY I
Sbjct: 254 GVLSN-RITVPSVRTAMSKLLTPNPELAETIRTKCMSLS--NWYGLIPALFPNAKYVYGI 310
Query: 320 MTGSMQHYLKKLRHYAGDLPLVSADYGSTESWIGVNVDPSLPPEDVTFAVIPTFSYFEFI 379
MTGSM+ Y+ KLRHYAGDLPLVS DYGS+E WI NV P L PE+ TFAVIP YFEF+
Sbjct: 311 MTGSMEPYVPKLRHYAGDLPLVSHDYGSSEGWIAANVTPRLSPEEATFAVIPNLGYFEFL 370
Query: 380 PIHRRKQDCNSAIDDFIEDEPVPLSQVKLGQEYEIVLTSFTGLYRYRLGDVVEVAGFHKG 439
P+ + E++PV L+QVK+G+EYE+V+T++ GLYRYRLGDVV+V GF+
Sbjct: 371 PVSETGEG---------EEKPVGLTQVKIGEEYEVVITNYAGLYRYRLGDVVKVIGFYNN 421
Query: 440 TPKLNFVCRRKLILTVNIDKNTEKDLQLVVDRGSQLLNKTGAELVDFTSHADIVNQPGHY 499
TP+L F+CRR LIL++NIDKNTE+DLQL V+ ++ L++ E++DF+S+ D+ PGHY
Sbjct: 422 TPQLKFICRRNLILSINIDKNTERDLQLSVESAAKRLSEEKIEVIDFSSYIDVSTDPGHY 481
Query: 500 IIYWEIKGDVEEGVLNQCCHEMDVSFVDPGYVVSRRTNSIGPLELCIVKRGAFRMILDYF 559
I+WEI G+ E VL CC+ +D +F+D GYV SR+ +IG LEL +V +G FR I ++F
Sbjct: 482 AIFWEISGETNEDVLQDCCNCLDRAFIDAGYVSSRKCKTIGALELRVVAKGTFRKIQEHF 541
Query: 560 VGNGAALSQFKTPRCT--SNQVLVRILNDWTIKRFHSTAY 597
+G G++ QFK PRC SN +++IL + + + STA+
Sbjct: 542 LGLGSSAGQFKMPRCVKPSNAKVLQILCENVVSSYFSTAF 581
>pdb|4B2G|A Chain A, Crystal Structure Of An Indole-3-acetic Acid Amido
Synthase From Vitis Vinifera Involved In Auxin
Homeostasis
pdb|4B2G|B Chain B, Crystal Structure Of An Indole-3-acetic Acid Amido
Synthase From Vitis Vinifera Involved In Auxin
Homeostasis
Length = 609
Score = 355 bits (910), Expect = 5e-98, Method: Compositional matrix adjust.
Identities = 193/588 (32%), Positives = 321/588 (54%), Gaps = 26/588 (4%)
Query: 17 ECDIIRWFEYISENAGEVQRETLRRILEQNYDVEYLKKRLGDTKIQDMDACEMETLYTSL 76
+ +++ E ++ NA VQ L IL +N + EYLK+ ++ + + S
Sbjct: 19 DAKALQFIEEMTRNADSVQERVLAEILSRNGETEYLKRF-------KLEGSTVRETFKSK 71
Query: 77 VPLASHADLEPYIQRIADGDTASLLTQEPITKLSLSSGTTEGRQKYVPFTKHSSQTTLQI 136
+P+ + DL+P IQRIA+GD +++L+ PI++ SSGT+ G +K +P + +
Sbjct: 72 IPVIKYEDLQPEIQRIANGDRSAILSAHPISEFLTSSGTSAGERKLMPTIQEELDRRQML 131
Query: 137 FRLAAAYRSRVYPIREGGRILEFIYSSKQFXXXXXXXXXXXXXHYYASEEFKIKQEKTKS 196
+ L + P + G+ L F++ + YY SE FK + +
Sbjct: 132 YSLLMPVMNLYVPGLDKGKGLYFLFVKSETRTPGGLLARPVLTSYYKSEHFKTRPYDPYN 191
Query: 197 FTCSPEEVISSGEYKQSTYCHLLLGLFFSDQVEFITSTFAYSIVQAFTAFEECWQDICID 256
SP E I + QS Y +L G++ QV + + FA +++A + W + D
Sbjct: 192 VYTSPNEAILCADSFQSMYTQMLCGIYERKQVLRLGAVFASGLLRAIRFLQLNWHQLTHD 251
Query: 257 VREGSLSSSRITLPKMRKAVLDTISPKPYLASKIEVACKKLESLDWFGLVPKLWPNAKYV 316
+R G+LS +IT P +R V + P P LA + C K +W G++ ++WPN KY+
Sbjct: 252 IRTGTLSP-KITDPSVRNCVAGVLKPDPELADLVAGECSKD---NWEGIITRIWPNTKYL 307
Query: 317 YSIMTGSMQHYLKKLRHYAGDLPLVSADYGSTESWIGVNVDPSLPPEDVTFAVIPTFSYF 376
I+TG+M Y+ L +Y+G LPL Y S+E + G+N++P P +V++ ++P +YF
Sbjct: 308 DVIVTGAMAQYIPTLDYYSGGLPLACTMYASSECYFGLNLNPMSKPSEVSYTIMPNMAYF 367
Query: 377 EFIPIHRRKQDCNSAIDDFIEDEP--VPLSQVKLGQEYEIVLTSFTGLYRYRLGDVVEVA 434
EF+P H +S+I + P V L+ V++G+EYE+V+T++ GLYRYR+GD++ V
Sbjct: 368 EFLP-HE-----HSSIPLSRDSPPRLVDLAHVEVGKEYELVITTYAGLYRYRVGDILRVT 421
Query: 435 GFHKGTPKLNFVCRRKLILTVNIDKNTEKDLQLVVDRGSQLLNKTGAELVDFTSHADIVN 494
GFH P+ +FV R+ ++L+++ DK E +LQ VD S+LL + +V++TS AD
Sbjct: 422 GFHNSAPQFHFVRRKNVLLSIDSDKTDEAELQKAVDNASKLLREVNTSVVEYTSFADTKT 481
Query: 495 QPGHYIIYWEI-----KGDVEEGVLNQCCHEMDVSFVDPGYVVSR-RTNSIGPLELCIVK 548
PGHY+IYWE+ + +L QCC M+ S ++ Y R NSIGPLE+ +VK
Sbjct: 482 IPGHYVIYWELLVKDSANSPSDELLGQCCLAMEES-LNSVYRQGRVADNSIGPLEIRVVK 540
Query: 549 RGAFRMILDYFVGNGAALSQFKTPRCTSNQVLVRILNDWTIKRFHSTA 596
G F ++DY + GA+++Q+K PRC + ++ +L+ + S A
Sbjct: 541 SGTFEELMDYAISRGASINQYKVPRCVNFTPIMELLDSRVVSSHFSPA 588
>pdb|4EWV|A Chain A, Crystal Structure Of Gh3.12 In Complex With Ampcpp
pdb|4EWV|B Chain B, Crystal Structure Of Gh3.12 In Complex With Ampcpp
pdb|4EPM|A Chain A, Crystal Structure Of Arabidopsis Gh3.12 (Pbs3) In Complex
With Amp
pdb|4EQL|A Chain A, Crystal Structure Of Gh3.12 In Complex With Amp And
Salicylate
pdb|4EQL|B Chain B, Crystal Structure Of Gh3.12 In Complex With Amp And
Salicylate
Length = 581
Score = 349 bits (896), Expect = 2e-96, Method: Compositional matrix adjust.
Identities = 198/580 (34%), Positives = 311/580 (53%), Gaps = 35/580 (6%)
Query: 27 ISENAGEVQRETLRRILEQNYDVEYLKKRLGDTKIQDMDACEMETLYTSLVPLASHADLE 86
++ N +Q L I+ N EYL++ L +D + E L+ VP+ S+ D++
Sbjct: 24 LTSNVKSIQDNLLEEIITPNTKTEYLQRFL-------IDRFDKE-LFKKNVPIVSYEDIK 75
Query: 87 PYIQRIADGDTASLLTQEPITKLSLSSGTTEGRQKYVPFTKHSSQTTLQIFRLAAAYRSR 146
PY+ R+ +G+++ +++ IT LSSGT+ G QK +P+ I+ L ++
Sbjct: 76 PYLDRVVNGESSDVISARTITGFLLSSGTSGGAQKMMPWNNKYLDNLTFIYDLRMQVITK 135
Query: 147 VYPIREGGRILEFIYSSKQFXXXXXXXXXXXXXHYYASEEFKIKQEKTKSFTCSPEEVIS 206
E G+ + F+++ ++ Y+ S+ FK + SP+EVI
Sbjct: 136 HVKGVEEGKGMMFLFTKQESMTPSGLPARVATSSYFKSDYFKNRPSNWYYSYTSPDEVIL 195
Query: 207 SGEYKQSTYCHLLLGLFFSDQVEFITSTFAYSIVQAFTAFEECWQDICIDVREGSLSSSR 266
+S YCHLL GL D+V S FA +V+A + W+++C ++R G LS+
Sbjct: 196 CPNNTESLYCHLLCGLVQRDEVVRTGSIFASVMVRAIEVLKNSWEELCSNIRSGHLSNWV 255
Query: 267 ITLPKMRKAVLDTISPKPYLASKIEVACKKLESLDWFGLVPKLWPNAKYVYSIMTGSMQH 326
L L P+P LA IE C + W G+V +LWPN KY+ +++TGSM
Sbjct: 256 TDLGCQNSVSLVLGGPRPELADTIEEICNQNS---WKGIVKRLWPNTKYIETVVTGSMGQ 312
Query: 327 YLKKLRHYAGDLPLVSADYGSTESWIGVNVDPSLPPEDVTFAVIPTFSYFEFIPIHRRKQ 386
Y+ L +Y DLPLVS YGS+E+ G+N+DP PEDV++ +P SYFEFIP+
Sbjct: 313 YVPMLNYYCNDLPLVSTTYGSSETTFGINLDPLCKPEDVSYTFMPNMSYFEFIPMD--GG 370
Query: 387 DCNSAIDDFIEDEPVPLSQVKLGQEYEIVLTSFTGLYRYRLGDVVEVAGFHKGTPKLNFV 446
D N +D L VKLG YE V+T+F GLYR R+GD+V V GF+ P+ FV
Sbjct: 371 DKNDVVD---------LEDVKLGCTYEPVVTNFAGLYRMRVGDIVLVTGFYNNAPQFKFV 421
Query: 447 CRRKLILTVNIDKNTEKDLQLVVDRGSQLLNKTGAELVDFTSHADIVNQPGHYIIYWEI- 505
R ++L+++ DK E+DL V + +L +G +L DFTS+AD PGHY++Y E+
Sbjct: 422 RRENVVLSIDSDKTNEEDLFKAVSQAKLVLESSGLDLKDFTSYADTSTFPGHYVVYLEVD 481
Query: 506 ----------KGDVEEGVLNQCCHEMDVSFVDPGYVVSR-RTNSIGPLELCIVKRGAFRM 554
+ +++E L+ CC M+ S +D Y R + SIGPLE+ +V++G F
Sbjct: 482 TKEGEEKETAQFELDEEALSTCCLVMEES-LDNVYKRCRFKDGSIGPLEIRVVRQGTFDS 540
Query: 555 ILDYFVGNGAALSQFKTPRCTSNQVLVRILNDWTIKRFHS 594
++D+F+ GA+ Q+KTPRC + +++L + +F S
Sbjct: 541 LMDFFISQGASTGQYKTPRCIKSGKALQVLETCVVAKFFS 580
>pdb|4EQ4|A Chain A, Crystal Structure Of Seleno-Methionine Derivatized Gh3.12
pdb|4EQ4|B Chain B, Crystal Structure Of Seleno-Methionine Derivatized Gh3.12
Length = 581
Score = 337 bits (865), Expect = 9e-93, Method: Compositional matrix adjust.
Identities = 197/580 (33%), Positives = 304/580 (52%), Gaps = 35/580 (6%)
Query: 27 ISENAGEVQRETLRRILEQNYDVEYLKKRLGDTKIQDMDACEMETLYTSLVPLASHADLE 86
++ N +Q L I+ N EYL++ L +D + E L+ VP+ S+ D++
Sbjct: 24 LTSNVKSIQDNLLEEIITPNTKTEYLQRFL-------IDRFDKE-LFKKNVPIVSYEDIK 75
Query: 87 PYIQRIADGDTASLLTQEPITKLSLSSGTTEGRQKYVPFTKHSSQTTLQIFRLAAAYRSR 146
PY+ R+ +G+++ +++ IT LSSGT+ G QK P+ I+ L ++
Sbjct: 76 PYLDRVVNGESSDVISARTITGFLLSSGTSGGAQKXXPWNNKYLDNLTFIYDLRXQVITK 135
Query: 147 VYPIREGGRILEFIYSSKQFXXXXXXXXXXXXXHYYASEEFKIKQEKTKSFTCSPEEVIS 206
E G+ F+++ ++ Y+ S+ FK + SP+EVI
Sbjct: 136 HVKGVEEGKGXXFLFTKQESXTPSGLPARVATSSYFKSDYFKNRPSNWYYSYTSPDEVIL 195
Query: 207 SGEYKQSTYCHLLLGLFFSDQVEFITSTFAYSIVQAFTAFEECWQDICIDVREGSLSSSR 266
+S YCHLL GL D+V S FA V+A + W+++C ++R G LS+
Sbjct: 196 CPNNTESLYCHLLCGLVQRDEVVRTGSIFASVXVRAIEVLKNSWEELCSNIRSGHLSNWV 255
Query: 267 ITLPKMRKAVLDTISPKPYLASKIEVACKKLESLDWFGLVPKLWPNAKYVYSIMTGSMQH 326
L L P+P LA IE C + W G+V +LWPN KY+ +++TGS
Sbjct: 256 TDLGCQNSVSLVLGGPRPELADTIEEICNQNS---WKGIVKRLWPNTKYIETVVTGSXGQ 312
Query: 327 YLKKLRHYAGDLPLVSADYGSTESWIGVNVDPSLPPEDVTFAVIPTFSYFEFIPIHRRKQ 386
Y+ L +Y DLPLVS YGS+E+ G+N+DP PEDV++ P SYFEFIP
Sbjct: 313 YVPXLNYYCNDLPLVSTTYGSSETTFGINLDPLCKPEDVSYTFXPNXSYFEFIPXD--GG 370
Query: 387 DCNSAIDDFIEDEPVPLSQVKLGQEYEIVLTSFTGLYRYRLGDVVEVAGFHKGTPKLNFV 446
D N +D L VKLG YE V+T+F GLYR R+GD+V V GF+ P+ FV
Sbjct: 371 DKNDVVD---------LEDVKLGCTYEPVVTNFAGLYRXRVGDIVLVTGFYNNAPQFKFV 421
Query: 447 CRRKLILTVNIDKNTEKDLQLVVDRGSQLLNKTGAELVDFTSHADIVNQPGHYIIYWEI- 505
R ++L+++ DK E+DL V + +L +G +L DFTS+AD PGHY++Y E+
Sbjct: 422 RRENVVLSIDSDKTNEEDLFKAVSQAKLVLESSGLDLKDFTSYADTSTFPGHYVVYLEVD 481
Query: 506 ----------KGDVEEGVLNQCCHEMDVSFVDPGYVVSR-RTNSIGPLELCIVKRGAFRM 554
+ +++E L+ CC + S +D Y R + SIGPLE+ +V++G F
Sbjct: 482 TKEGEEKETAQFELDEEALSTCCLVXEES-LDNVYKRCRFKDGSIGPLEIRVVRQGTFDS 540
Query: 555 ILDYFVGNGAALSQFKTPRCTSNQVLVRILNDWTIKRFHS 594
+ D+F+ GA+ Q+KTPRC + +++L + +F S
Sbjct: 541 LXDFFISQGASTGQYKTPRCIKSGKALQVLETCVVAKFFS 580
>pdb|3EVY|A Chain A, Crystal Structure Of A Fragment Of A Putative Type I
Restriction Enzyme R Protein From Bacteroides Fragilis
pdb|3EVY|B Chain B, Crystal Structure Of A Fragment Of A Putative Type I
Restriction Enzyme R Protein From Bacteroides Fragilis
Length = 239
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/21 (66%), Positives = 15/21 (71%)
Query: 270 PKMRKAVLDTISPKPYLASKI 290
PK RKAVLDT+ P L SKI
Sbjct: 143 PKDRKAVLDTMDSNPELRSKI 163
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
0.321 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,793,426
Number of Sequences: 62578
Number of extensions: 695249
Number of successful extensions: 1495
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1471
Number of HSP's gapped (non-prelim): 6
length of query: 598
length of database: 14,973,337
effective HSP length: 104
effective length of query: 494
effective length of database: 8,465,225
effective search space: 4181821150
effective search space used: 4181821150
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: 54 (25.4 bits)