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= 014922
(416 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IVD|A Chain A, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus With Acifluorfen
pdb|2IVD|B Chain B, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus With Acifluorfen
pdb|2IVE|A Chain A, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus
pdb|2IVE|B Chain B, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus
Length = 478
Score = 154 bits (389), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 120/388 (30%), Positives = 187/388 (48%), Gaps = 19/388 (4%)
Query: 18 DPNAPR-FVLWNGRLRPVPSSPTDLPIFDLMSIGGKIXXXXXXXXXXXXXXXHEESVEEF 76
DP A R +V GRLR VP+SP D++ +G ++ +ES+ F
Sbjct: 96 DPAAKRRYVYTRGRLRSVPASPPAFLASDILPLGARLRVAGELFSRRAPEGV-DESLAAF 154
Query: 77 VRRNLGDEVFERLIEPFCSGVYAGDPSKLSMKAAFGKVWKLEQTGGSIIGGTFKAIQEKN 136
RR+LG + L++ +G+YAGD +LS+ A F + K+E+ S+I G +A
Sbjct: 155 GRRHLGHRATQVLLDAVQTGIYAGDVEQLSVAATFPMLVKMEREHRSLILGAIRA----Q 210
Query: 137 KAPKQPRDPRLPKPK-GQTVGSFRKGLTMLPEAISKRLGSKVKLSWKLSGVKKLDSGEYS 195
KA +Q P PK + +F GL +L +A++ LG + ++ G+ + D G +
Sbjct: 211 KAQRQAALPAGTAPKLSGALSTFDGGLQVLIDALAASLGDAAHVGARVEGLAREDGG-WR 269
Query: 196 LTYETPEGLVSLRSRSVVMTVPSYVASSLLRPLSVDAAGALSQFYYPPVAAVSVSYPKEA 255
L E L VV+ P++ + LLRPL A ++ Y P+A V + +
Sbjct: 270 LIIEEHGRRAELSVAQVVLAAPAHATAKLLRPLDDALAALVAGIAYAPIAVVHLGFDAGT 329
Query: 256 IRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGIL 315
+ GFG L P + LG I++S+ FP RA GRVL +GGA G++
Sbjct: 330 LPAP-------DGFGFLVPAEEQRRMLGAIHASTTFPFRAEGGRVLYSCMVGGARQPGLV 382
Query: 316 SKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQAIPQFLVGHLDLLDAAKSSLRDN 375
+ E L A+ R+ K L A+ P V W IPQ+ +GHL+ + A ++L+
Sbjct: 383 EQDEDALA-ALAREELKALAGVTAR-PSFTRVFRWPLGIPQYNLGHLERVAAIDAALQR- 439
Query: 376 GYQGLFLGGNYVAGVALGRCVESAYEVA 403
GL L GN GV L C+ +A ++A
Sbjct: 440 -LPGLHLIGNAYKGVGLNDCIRNAAQLA 466
>pdb|3I6D|A Chain A, Crystal Structure Of Ppo From Bacillus Subtilis With Af
pdb|3I6D|B Chain B, Crystal Structure Of Ppo From Bacillus Subtilis With Af
Length = 470
Score = 146 bits (369), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 118/416 (28%), Positives = 199/416 (47%), Gaps = 31/416 (7%)
Query: 3 KMVVDSGLKDDLVLGDPNAPRFVLWNGRLRPVPSS-----PTDLPIF---DLMSIGGKIX 54
++V D GL + L++ + +VL N L P+P PT + F L S+ GK
Sbjct: 76 QLVKDLGL-EHLLVNNATGQSYVLVNRTLHPMPKGAVMGIPTKIAPFVSTGLFSLSGK-A 133
Query: 55 XXXXXXXXXXXXXXHEESVEEFVRRNLGDEVFERLIEPFCSGVYAGDPSKLSMKAAFGKV 114
++S+ EF RR +GDEV E LIEP SG+YAGD KLS+ + F +
Sbjct: 134 RAAMDFILPASKTKDDQSLGEFFRRRVGDEVVENLIEPLLSGIYAGDIDKLSLMSTFPQF 193
Query: 115 WKLEQTGGSIIGGTFKAIQEKNKAPKQPRDPRLPKPKGQTVGSFRKGLTMLPEAISKRLG 174
++ EQ S+I G K P+ K +GQ + GL L E I K+L
Sbjct: 194 YQTEQKHRSLILGM------KKTRPQGSGQQLTAKKQGQ-FQTLSTGLQTLVEEIEKQL- 245
Query: 175 SKVKLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSRSVVMTVPSYVASSLLRPLSVDAAG 234
K+ +K + V KL + E G V+L + SV++T P A+ +L L A
Sbjct: 246 -KLTKVYKGTKVTKLSHSGSCYSLELDNG-VTLDADSVIVTAPHKAAAGMLSELP--AIS 301
Query: 235 ALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNR 294
L + VA V++ +P+ +++ E +G G + R+ +++ +P+
Sbjct: 302 HLKNMHSTSVANVALGFPEGSVQMEH------EGTGFVISRNSDFAITACTWTNKKWPHA 355
Query: 295 APAGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQAI 354
AP G+ LL Y+G A + I+ +++++ V DL+K++ N N +P + V W +++
Sbjct: 356 APEGKTLLRAYVGKAGDESIVDLSDNDIINIVLEDLKKVM-NING-EPEMTCVTRWHESM 413
Query: 355 PQFLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESAYEVASEVSNFL 410
PQ+ VGH + + +L + Y G+++ G GV + C++ S+ +L
Sbjct: 414 PQYHVGHKQRIKELREALA-SAYPGVYMTGASFEGVGIPDCIDQGKAAVSDALTYL 468
>pdb|1SEZ|A Chain A, Crystal Structure Of Protoporphyrinogen Ix Oxidase
pdb|1SEZ|B Chain B, Crystal Structure Of Protoporphyrinogen Ix Oxidase
Length = 504
Score = 138 bits (347), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 124/438 (28%), Positives = 204/438 (46%), Gaps = 49/438 (11%)
Query: 2 LKMVVDS-GLKDDLVLGDPNAPRFVLWNGRLRPVPSSPTDLPIFDLMSIGGKIXXXXX-- 58
+ ++DS GL++ R++ NG +PS+P DL + +S G K+
Sbjct: 76 VTFLIDSLGLREKQQFPLSQNKRYIARNGTPVLLPSNPIDLIKSNFLSTGSKLQXLLEPI 135
Query: 59 --XXXXXXXXXXHEESVEEFVRRNLGDEVFERLIEPFCSGVYAGDPSKLSMKAAFGKVWK 116
ESV F +R+ G EV + LI+PF +G GDP LS +F ++W
Sbjct: 136 LWKNKKLSQVSDSHESVSGFFQRHFGKEVVDYLIDPFVAGTCGGDPDSLSXHHSFPELWN 195
Query: 117 LEQTGGSIIGGTFKA-IQEKNKAPKQPRDPRLPKPKGQTVGSFRKGLTMLPEAISK---- 171
LE+ GS+I G ++ + KN+ + P K + + SF G L +AI K
Sbjct: 196 LEKRFGSVILGAIRSKLSPKNEKKQGPPKTSANKKRQRGSFSFLGGXQTLTDAICKDLRE 255
Query: 172 ---RLGSKV-KLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSR--SVVMTVP-----SYV 220
RL S+V +LS + +DS +S+ +P S +V+ T P S
Sbjct: 256 DELRLNSRVLELSCSCTEDSAIDS--WSIISASPHKRQSEEESFDAVIXTAPLCDVKSXK 313
Query: 221 ASSLLRPLSVDAAGALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLHP---RSQ 277
+ P ++ + + Y P++ V ++ +E ++ L+GFG L P +
Sbjct: 314 IAKRGNPFLLN---FIPEVDYVPLSVVITTFKRENVKY------PLEGFGVLVPSKEQQH 364
Query: 278 GVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINP 337
G++TLGT++SS FP+RAP L ++GG+ N + +EL E V DL+++L
Sbjct: 365 GLKTLGTLFSSXXFPDRAPNNVYLYTTFVGGSRNRELAKASRTELKEIVTSDLKQLL--G 422
Query: 338 NAKDPLVLGVRVWQQAIPQFLVGH-----LDLLDAAKSSLRDNGYQGLFLGGNYVAGVAL 392
+P + W +A P L GH LD +D + +L GLF GN+ G+++
Sbjct: 423 AEGEPTYVNHLYWSKAFP--LYGHNYDSVLDAIDKXEKNL-----PGLFYAGNHRGGLSV 475
Query: 393 GRCVESAYEVASEVSNFL 410
G+ + S A V ++L
Sbjct: 476 GKALSSGCNAADLVISYL 493
>pdb|3NKS|A Chain A, Structure Of Human Protoporphyrinogen Ix Oxidase
Length = 477
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 96/355 (27%), Positives = 160/355 (45%), Gaps = 45/355 (12%)
Query: 70 EESVEEFVRRNLGDEVFERLIEPFCSGVYAGDPSKLSMKAAFGKVWKLEQTGGSIIGGTF 129
+E+V F +R LG EV ++ C GV+AG+ +LS+++ F +++ EQT SI
Sbjct: 143 DETVHSFAQRRLGPEVASLAMDSLCRGVFAGNSRELSIRSCFPSLFQAEQTHRSI---LL 199
Query: 130 KAIQEKNKAPKQPRDPRLPKPKGQ--TVGSFRKGLTMLPEAISKRLGSK---VKLSWKLS 184
+ + P QP + + + + S R GL MLP+A+ L S+ V +
Sbjct: 200 GLLLGAGRTP-QPDSALIRQALAERWSQWSLRGGLEMLPQALETHLTSRGVSVLRGQPVC 258
Query: 185 GVKKLDSGEYSLTYETPEGLVSLRSRSVVMTVPSYVASSLLRPLSVDAAGALSQFYYPPV 244
G+ G + ++ SL + V+ +P+ V S LL + A ALS V
Sbjct: 259 GLSLQAEGRWKVSLRD----SSLEADHVISAIPASVLSELLPAEAAPLARALSAITAVSV 314
Query: 245 AAVSVSYPKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNR---APAGRVL 301
A V++ Y + ++GFG L P S+ LG +Y S FP + P RV
Sbjct: 315 AVVNLQYQGAHL--------PVQGFGHLVPSSEDPGVLGIVYDSVAFPEQDGSPPGLRVT 366
Query: 302 LLNYIGGA------TNLGILS----KKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQ 351
++ +GG+ + +LS ++ ++ A L++M P V + +
Sbjct: 367 VM--LGGSWLQTLEASGCVLSQELFQQRAQEAAATQLGLKEM--------PSHCLVHLHK 416
Query: 352 QAIPQFLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESAYEVASEV 406
IPQ+ +GH L++A+ L + L L G GVA+ C+ES + A V
Sbjct: 417 NCIPQYTLGHWQKLESARQFLTAHRLP-LTLAGASYEGVAVNDCIESGRQAAVSV 470
>pdb|3LOV|A Chain A, Crystal Structure Of Putative Protoporphyrinogen Oxidase
(Yp_001813199.1) From Exiguobacterium Sp. 255-15 At 2.06
A Resolution
Length = 475
Score = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 102/403 (25%), Positives = 169/403 (41%), Gaps = 37/403 (9%)
Query: 9 GLKDDLVLGDPNAPRFVLWNGRLRPVPSS-----PTDLPIF---DLMSIGGKIXXXXXXX 60
GL + LV + + F+L G L P+P PTDL +F L++ K
Sbjct: 77 GLGEKLVRNN-TSQAFILDTGGLHPIPKGAVXGIPTDLDLFRQTTLLTEEEKQEVADLLL 135
Query: 61 XXXXXXXXHEESVE--EFVRRNLGDEVFERLIEPFCSGVYAGDPSKLSMKAAFGKVWKLE 118
E+ + E++R LGD + E+LIEP SG+YAG+ + S A + + E
Sbjct: 136 HPSDSLRIPEQDIPLGEYLRPRLGDALVEKLIEPLLSGIYAGNIDQXSTFATYPQFVANE 195
Query: 119 QTGGSIIGGTFKAIQEKNKAPKQPRDPRLPKPKGQTVGSFRKGLTMLPEAISKRLG-SKV 177
Q GS+ G + + ++ P+ P+ K GQ + S GL L E + + L S++
Sbjct: 196 QKAGSLFEGX-RLXRPLDQLPQTPQ--TTIKATGQFL-SLETGLESLIERLEEVLERSEI 251
Query: 178 KLSWKLSGVKKLDSGEYSL-TYETPEGLVSLRSRSVVMTVPSYVASSLLRPLSVDAAGAL 236
+L L + + D G Y L T PE + V++T+P LL + L
Sbjct: 252 RLETPLLAISRED-GRYRLKTDHGPE-----YADYVLLTIPHPQVVQLLPDAHLP---EL 302
Query: 237 SQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNRAP 296
Q A V+ + ++ ++G G + R + + AP
Sbjct: 303 EQLTTHSTATVTXIFDQQQ-------SLPIEGTGFVVNRRAPYSITACTAIDQKWNHSAP 355
Query: 297 AGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQAIPQ 356
+L ++G N ++ + + L +AV +DL K I +P + + +P
Sbjct: 356 -DHTVLRAFVGRPGNDHLVHESDEVLQQAVLQDLEK--ICGRTLEPKQVIISRLXDGLPA 412
Query: 357 FLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESA 399
+ VGH D + + + Y G++L G GV L CV SA
Sbjct: 413 YTVGHADRIQRVREEVLAQ-YPGIYLAGLAYDGVGLPDCVASA 454
>pdb|3P0R|A Chain A, Crystal Structure Of Azoreductase From Bacillus Anthracis
Str. Sterne
Length = 211
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 49/122 (40%), Gaps = 11/122 (9%)
Query: 252 PKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATN 311
P E + L + L + + HP VE L+ P V +N A
Sbjct: 16 PAEQAVSVKLYEAFLASYKEAHPNDTVVEL-------DLYKEELPYVGVDXINGTFKAGK 68
Query: 312 LGILSKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQAIPQFLVGHLDLLDAAKSS 371
L+++E++ V D+ L + L D +V G +W IP L ++D L+ A +
Sbjct: 69 GFDLTEEEAKAVAVADKYLNQFL----EADKVVFGFPLWNLTIPAVLHTYIDYLNRAGKT 124
Query: 372 LR 373
+
Sbjct: 125 FK 126
>pdb|1NCT|A Chain A, Titin Module M5, N-Terminally Extended, Nmr
pdb|1NCU|A Chain A, Titin Module M5, N-Terminally Extended, Nmr
Length = 106
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 154 TVGSFRKGLTMLPEAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEG 203
TV RKG + A + +K K ++++S V+ D G YS+ E EG
Sbjct: 45 TVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQASDEGNYSVVVENSEG 94
>pdb|1TNM|A Chain A, Tertiary Structure Of An Immunoglobulin-Like Domain From
The Muscle Protein Titin: A New Member Of The I Set
pdb|1TNN|A Chain A, Tertiary Structure Of An Immunoglobulin-Like Domain From
The Muscle Protein Titin: A New Member Of The I Set
Length = 100
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 154 TVGSFRKGLTMLPEAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEG 203
TV RKG + A + +K K ++++S V+ D G YS+ E EG
Sbjct: 39 TVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQASDEGNYSVVVENSEG 88
>pdb|4DXD|A Chain A, Staphylococcal Aureus Ftsz In Complex With 723
Length = 396
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 266 LKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELV-- 323
L G G ++ VE SS L + +L+N GG + L + +E+ +
Sbjct: 231 LMGIGVSSGENRAVEAAKKAISSPLLETSIVGAQGVLMNITGGES-LSLFEAQEAADIVQ 289
Query: 324 EAVDRDLRKM---LINPNAKDPLVLGV 347
+A D D+ + +INP +D +V+ V
Sbjct: 290 DAADEDVNMIFGTVINPELQDEIVVTV 316
>pdb|3VO8|A Chain A, Staphylococcus Aureus Ftsz Gdp-Form
pdb|3VO8|B Chain B, Staphylococcus Aureus Ftsz Gdp-Form
Length = 392
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 266 LKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELV-- 323
L G G ++ VE SS L + +L+N GG + L + +E+ +
Sbjct: 227 LMGIGVSSGENRAVEAAKKAISSPLLETSIVGAQGVLMNITGGES-LSLFEAQEAADIVQ 285
Query: 324 EAVDRDLRKM---LINPNAKDPLVLGV 347
+A D D+ + +INP +D +V+ V
Sbjct: 286 DAADEDVNMIFGTVINPELQDEIVVTV 312
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
0.317 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,207,640
Number of Sequences: 62578
Number of extensions: 509790
Number of successful extensions: 1172
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1147
Number of HSP's gapped (non-prelim): 13
length of query: 416
length of database: 14,973,337
effective HSP length: 101
effective length of query: 315
effective length of database: 8,652,959
effective search space: 2725682085
effective search space used: 2725682085
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)