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= 021616
(310 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 = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 90/301 (29%), Positives = 142/301 (47%), Gaps = 17/301 (5%)
Query: 1 MKAAFGKVWKLEQTGGSIIGGTFKAIQEKNKAPKQPRDPRLPKPK-GQTVGSFRKGLTML 59
+ A F + K+E+ S+I G +A KA +Q P PK + +F GL +L
Sbjct: 185 VAATFPMLVKMEREHRSLILGAIRA----QKAQRQAALPAGTAPKLSGALSTFDGGLQVL 240
Query: 60 PEAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSRSVVMTVPSYVASSLL 119
+A++ LG + ++ G+ + D G + L E L VV+ P++ + LL
Sbjct: 241 IDALAASLGDAAHVGARVEGLAREDGG-WRLIIEEHGRRAELSVAQVVLAAPAHATAKLL 299
Query: 120 RPLSVDAAGALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLHPRSQGVETLGTI 179
RPL A ++ Y P+A V + + + GFG L P + LG I
Sbjct: 300 RPLDDALAALVAGIAYAPIAVVHLGFDAGTLPAP-------DGFGFLVPAEEQRRMLGAI 352
Query: 180 YSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINPNAKDPLVL 239
++S+ FP RA GRVL +GGA G++ + E L A+ R+ K L A+ P
Sbjct: 353 HASTTFPFRAEGGRVLYSCMVGGARQPGLVEQDEDALA-ALAREELKALAGVTAR-PSFT 410
Query: 240 GVRVWQQAIPQFLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESAYEVASE 299
V W IPQ+ +GHL+ + A ++L+ GL L GN GV L C+ +A ++A
Sbjct: 411 RVFRWPLGIPQYNLGHLERVAAIDAALQR--LPGLHLIGNAYKGVGLNDCIRNAAQLADA 468
Query: 300 V 300
+
Sbjct: 469 L 469
>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 = 94.4 bits (233), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 90/325 (27%), Positives = 153/325 (47%), Gaps = 44/325 (13%)
Query: 4 AFGKVWKLEQTGGSIIGGTFKA-IQEKNKAPKQPRDPRLPKPKGQTVGSFRKGLTMLPEA 62
+F ++W LE+ GS+I G ++ + KN+ + P K + + SF G L +A
Sbjct: 189 SFPELWNLEKRFGSVILGAIRSKLSPKNEKKQGPPKTSANKKRQRGSFSFLGGXQTLTDA 248
Query: 63 ISK-------RLGSKV-KLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSR--SVVMTVP- 111
I K RL S+V +LS + +DS +S+ +P S +V+ T P
Sbjct: 249 ICKDLREDELRLNSRVLELSCSCTEDSAIDS--WSIISASPHKRQSEEESFDAVIXTAPL 306
Query: 112 ----SYVASSLLRPLSVDAAGALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLH 167
S + P ++ + + Y P++ V ++ +E ++ L+GFG L
Sbjct: 307 CDVKSXKIAKRGNPFLLNF---IPEVDYVPLSVVITTFKRENVKYP------LEGFGVLV 357
Query: 168 P---RSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELVEAVDRDL 224
P + G++TLGT++SS FP+RAP L ++GG+ N + +EL E V DL
Sbjct: 358 PSKEQQHGLKTLGTLFSSXXFPDRAPNNVYLYTTFVGGSRNRELAKASRTELKEIVTSDL 417
Query: 225 RKMLINPNAKDPLVLGVRVWQQAIPQFLVGH-----LDLLDAAKSSLRDNGYQGLFLGGN 279
+++L +P + W +A P L GH LD +D + +L GLF GN
Sbjct: 418 KQLL--GAEGEPTYVNHLYWSKAFP--LYGHNYDSVLDAIDKXEKNL-----PGLFYAGN 468
Query: 280 YVAGVALGRCVESAYEVASEVSNFL 304
+ G+++G+ + S A V ++L
Sbjct: 469 HRGGLSVGKALSSGCNAADLVISYL 493
>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 = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 77/304 (25%), Positives = 143/304 (47%), Gaps = 21/304 (6%)
Query: 1 MKAAFGKVWKLEQTGGSIIGGTFKAIQEKNKAPKQPRDPRLPKPKGQTVGSFRKGLTMLP 60
+ + F + ++ EQ S+I G K P+ K +GQ + GL L
Sbjct: 186 LMSTFPQFYQTEQKHRSLILGM------KKTRPQGSGQQLTAKKQGQ-FQTLSTGLQTLV 238
Query: 61 EAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSRSVVMTVPSYVASSLLR 120
E I K+L K+ +K + V KL + E G V+L + SV++T P A+ +L
Sbjct: 239 EEIEKQL--KLTKVYKGTKVTKLSHSGSCYSLELDNG-VTLDADSVIVTAPHKAAAGMLS 295
Query: 121 PLSVDAAGALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIY 180
L A L + VA V++ +P+ +++ E +G G + R+ +
Sbjct: 296 ELP--AISHLKNMHSTSVANVALGFPEGSVQMEH------EGTGFVISRNSDFAITACTW 347
Query: 181 SSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINPNAKDPLVLG 240
++ +P+ AP G+ LL Y+G A + I+ +++++ V DL+K++ N N +P +
Sbjct: 348 TNKKWPHAAPEGKTLLRAYVGKAGDESIVDLSDNDIINIVLEDLKKVM-NING-EPEMTC 405
Query: 241 VRVWQQAIPQFLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESAYEVASEV 300
V W +++PQ+ VGH + + +L + Y G+++ G GV + C++ S+
Sbjct: 406 VTRWHESMPQYHVGHKQRIKELREALA-SAYPGVYMTGASFEGVGIPDCIDQGKAAVSDA 464
Query: 301 SNFL 304
+L
Sbjct: 465 LTYL 468
>pdb|3NKS|A Chain A, Structure Of Human Protoporphyrinogen Ix Oxidase
Length = 477
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 69/264 (26%), Positives = 111/264 (42%), Gaps = 35/264 (13%)
Query: 51 SFRKGLTMLPEAISKRLGSK---VKLSWKLSGVKKLDSGEYSLTYETPEGLVSLRSRSVV 107
S R GL MLP+A+ L S+ V + G+ G + ++ SL + V+
Sbjct: 228 SLRGGLEMLPQALETHLTSRGVSVLRGQPVCGLSLQAEGRWKVSLRD----SSLEADHVI 283
Query: 108 MTVPSYVASSLLRPLSVDAAGALSQFYYPPVAAVSVSYPKEAIRTECLIDGELKGFGQLH 167
+P+ V S LL + A ALS VA V++ Y + ++GFG L
Sbjct: 284 SAIPASVLSELLPAEAAPLARALSAITAVSVAVVNLQYQGAHL--------PVQGFGHLV 335
Query: 168 PRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILS-----------KKESEL 216
P S+ LG +Y S FP + + L + + G + L L ++ ++
Sbjct: 336 PSSEDPGVLGIVYDSVAFPEQDGSPPGLRVTVMLGGSWLQTLEASGCVLSQELFQQRAQE 395
Query: 217 VEAVDRDLRKMLINPNAKDPLVLGVRVWQQAIPQFLVGHLDLLDAAKSSLRDNGYQGLFL 276
A L++M P V + + IPQ+ +GH L++A+ L + L L
Sbjct: 396 AAATQLGLKEM--------PSHCLVHLHKNCIPQYTLGHWQKLESARQFLTAHRLP-LTL 446
Query: 277 GGNYVAGVALGRCVESAYEVASEV 300
G GVA+ C+ES + A V
Sbjct: 447 AGASYEGVAVNDCIESGRQAAVSV 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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 48/107 (44%), Gaps = 3/107 (2%)
Query: 187 NRAPAGRVLLLNYIGGATNLGILSKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQ 246
N + +L ++G N ++ + + L +AV +DL K I +P + +
Sbjct: 351 NHSAPDHTVLRAFVGRPGNDHLVHESDEVLQQAVLQDLEK--ICGRTLEPKQVIISRLXD 408
Query: 247 AIPQFLVGHLDLLDAAKSSLRDNGYQGLFLGGNYVAGVALGRCVESA 293
+P + VGH D + + + Y G++L G GV L CV SA
Sbjct: 409 GLPAYTVGHADRIQRVREEVLAQ-YPGIYLAGLAYDGVGLPDCVASA 454
>pdb|3P0R|A Chain A, Crystal Structure Of Azoreductase From Bacillus Anthracis
Str. Sterne
Length = 211
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 11/122 (9%)
Query: 146 PKEAIRTECLIDGELKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATN 205
P E + L + L + + HP T+ L+ P V +N A
Sbjct: 16 PAEQAVSVKLYEAFLASYKEAHPND-------TVVELDLYKEELPYVGVDXINGTFKAGK 68
Query: 206 LGILSKKESELVEAVDRDLRKMLINPNAKDPLVLGVRVWQQAIPQFLVGHLDLLDAAKSS 265
L+++E++ V D+ L + L D +V G +W IP L ++D L+ A +
Sbjct: 69 GFDLTEEEAKAVAVADKYLNQFL----EADKVVFGFPLWNLTIPAVLHTYIDYLNRAGKT 124
Query: 266 LR 267
+
Sbjct: 125 FK 126
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 48 TVGSFRKGLTMLPEAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEG 97
TV RKG + A + +K K ++++S V+ D G YS+ E EG
Sbjct: 39 TVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQASDEGNYSVVVENSEG 88
>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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 48 TVGSFRKGLTMLPEAISKRLGSKVKLSWKLSGVKKLDSGEYSLTYETPEG 97
TV RKG + A + +K K ++++S V+ D G YS+ E EG
Sbjct: 45 TVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQASDEGNYSVVVENSEG 94
>pdb|4DXD|A Chain A, Staphylococcal Aureus Ftsz In Complex With 723
Length = 396
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 160 LKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELV-- 217
L G G ++ VE SS L + +L+N GG + L + +E+ +
Sbjct: 231 LMGIGVSSGENRAVEAAKKAISSPLLETSIVGAQGVLMNITGGES-LSLFEAQEAADIVQ 289
Query: 218 EAVDRDLRKM---LINPNAKDPLVLGV 241
+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 = 6.2, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 160 LKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELV-- 217
L G G ++ VE SS L + +L+N GG + L + +E+ +
Sbjct: 227 LMGIGVSSGENRAVEAAKKAISSPLLETSIVGAQGVLMNITGGES-LSLFEAQEAADIVQ 285
Query: 218 EAVDRDLRKM---LINPNAKDPLVLGV 241
+A D D+ + +INP +D +V+ V
Sbjct: 286 DAADEDVNMIFGTVINPELQDEIVVTV 312
>pdb|3VOA|A Chain A, Staphylococcus Aureus Ftsz 12-316 Gdp-Form
pdb|3VOB|A Chain A, Staphylococcus Aureus Ftsz With Pc190723
pdb|3VPA|A Chain A, Staphylococcus Aureus Ftsz Apo-Form
pdb|3VPA|B Chain B, Staphylococcus Aureus Ftsz Apo-Form
pdb|3VPA|C Chain C, Staphylococcus Aureus Ftsz Apo-Form
pdb|3VPA|D Chain D, Staphylococcus Aureus Ftsz Apo-Form
Length = 308
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 160 LKGFGQLHPRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGGATNLGILSKKESELV-- 217
L G G ++ VE SS L + +L+N GG + L + +E+ +
Sbjct: 217 LMGIGVSSGENRAVEAAKKAISSPLLETSIVGAQGVLMNITGGES-LSLFEAQEAADIVQ 275
Query: 218 EAVDRDLRKM---LINPNAKDPLVLGV 241
+A D D+ + +INP +D +V+ V
Sbjct: 276 DAADEDVNMIFGTVINPELQDEIVVTV 302
>pdb|4EYE|A Chain A, Crystal Structure Of A Probable Oxidoreductase From
Mycobacterium Abscessus Solved By Iodide Ion Sad
pdb|4EYE|B Chain B, Crystal Structure Of A Probable Oxidoreductase From
Mycobacterium Abscessus Solved By Iodide Ion Sad
Length = 342
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 168 PRSQGVETLGTIYSSSLFPNRAPAGRVLLLNYIGG 202
P G+ET G + S+ P RV+ N+IGG
Sbjct: 79 PFVPGIETAGVVRSAPEGSGIKPGDRVMAFNFIGG 113
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
0.316 0.134 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,199,791
Number of Sequences: 62578
Number of extensions: 381600
Number of successful extensions: 962
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 943
Number of HSP's gapped (non-prelim): 14
length of query: 310
length of database: 14,973,337
effective HSP length: 99
effective length of query: 211
effective length of database: 8,778,115
effective search space: 1852182265
effective search space used: 1852182265
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: 51 (24.3 bits)