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= 000330
(1652 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1L2W|A Chain A, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|B Chain B, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|C Chain C, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|D Chain D, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|E Chain E, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|F Chain F, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|G Chain G, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
pdb|1L2W|H Chain H, Crystal Structure Of The Yersinia Virulence Effector Yope
Chaperone-Binding Domain In Complex With Its Secretion
Chaperone, Syce
Length = 123
Score = 34.7 bits (78), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 803 TQACYLIANSKPDIVKGYVGKEMGSYTCNLAIDPLWPLCMYELRGKCNNDE 853
TQ ++ S PD ++ +G ++G + C++ P+ + M+ L NNDE
Sbjct: 10 TQLFQQLSLSIPDTIEPVIGVKVGEFACHITEHPVGQILMFTLPSLDNNDE 60
>pdb|1KV3|A Chain A, Human Tissue Transglutaminase In Gdp Bound Form
pdb|1KV3|B Chain B, Human Tissue Transglutaminase In Gdp Bound Form
pdb|1KV3|C Chain C, Human Tissue Transglutaminase In Gdp Bound Form
pdb|1KV3|D Chain D, Human Tissue Transglutaminase In Gdp Bound Form
pdb|1KV3|E Chain E, Human Tissue Transglutaminase In Gdp Bound Form
pdb|1KV3|F Chain F, Human Tissue Transglutaminase In Gdp Bound Form
pdb|2Q3Z|A Chain A, Transglutaminase 2 Undergoes Large Conformational Change
Upon Activation
Length = 687
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 769 KSELCIALSNQSGNQHNHGRNFEIEEVACVNSDKTQACYLIANSKPDIVKGYVGKEMGS- 827
K E +A+ + G N G +F++ N+ + C L+ ++ G +G E G+
Sbjct: 468 KEETGMAMRIRVGQSMNMGSDFDVFAHITNNTAEEYVCRLLLCARTVSYNGILGPECGTK 527
Query: 828 YTCNLAIDPL----WPLC-MYELRGKC 849
Y NL ++P PLC +YE C
Sbjct: 528 YLLNLTLEPFSEKSVPLCILYEKYRDC 554
>pdb|1N5B|A Chain A, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|B Chain B, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|C Chain C, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|D Chain D, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
Length = 132
Score = 32.7 bits (73), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 28/51 (54%)
Query: 803 TQACYLIANSKPDIVKGYVGKEMGSYTCNLAIDPLWPLCMYELRGKCNNDE 853
TQ ++ S PD ++ +G ++G + C++ P+ + M+ L NN+E
Sbjct: 9 TQLFQQLSLSIPDTIEPVIGVKVGEFACHITEHPVGQILMFTLPSLDNNNE 59
>pdb|1JYA|A Chain A, Crystal Structure Of Syce
pdb|1JYA|B Chain B, Crystal Structure Of Syce
Length = 130
Score = 32.7 bits (73), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 803 TQACYLIANSKPDIVKGYVGKEMGSYTCNLAIDPLWPLCMYELRGKCNNDE 853
TQ ++ S PD ++ +G ++G + C++ P+ + + L NNDE
Sbjct: 9 TQLFQQLSLSIPDTIEPVIGVKVGEFACHITEHPVGQILXFTLPSLDNNDE 59
>pdb|1K6Z|A Chain A, Crystal Structure Of The Yersinia Secretion Chaperone Syce
pdb|1K6Z|B Chain B, Crystal Structure Of The Yersinia Secretion Chaperone Syce
Length = 141
Score = 32.3 bits (72), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 803 TQACYLIANSKPDIVKGYVGKEMGSYTCNLAIDPLWPLCMYELRGKCNNDE 853
TQ ++ S PD ++ +G ++G + C++ P+ + + L NNDE
Sbjct: 14 TQLFQQLSLSIPDTIEPVIGVKVGEFACHITEHPVGQILXFTLPSLDNNDE 64
>pdb|3S3J|A Chain A, Transglutaminase 2 In Complex With A Novel Inhibitor
pdb|3S3P|A Chain A, Transglutaminase 2 In Complex With A Novel Inhibitor
pdb|3S3S|A Chain A, Transglutaminase 2 In Complex With A Novel Inhibitor
Length = 694
Score = 32.3 bits (72), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 769 KSELCIALSNQSGNQHNHGRNFEIEEVACVNSDKTQACYLIANSKPDIVKGYVGKEMGS- 827
K E +A+ + G N G +F++ N+ + C L+ ++ G +G E G+
Sbjct: 475 KEETGMAMRIRVGQSMNMGSDFDVFAHITNNTAEEYVCRLLLCARTVSYNGILGPECGTK 534
Query: 828 YTCNLAIDPL----WPLC-MYELRGKC 849
Y NL ++P PLC +YE C
Sbjct: 535 YLLNLNLEPFSEKSVPLCILYEKYRDC 561
>pdb|3LY6|A Chain A, Crystal Structure Of Human Transglutaminase 2 Complex With
Adenosine 5' Triphosphate
pdb|3LY6|B Chain B, Crystal Structure Of Human Transglutaminase 2 Complex With
Adenosine 5' Triphosphate
pdb|3LY6|C Chain C, Crystal Structure Of Human Transglutaminase 2 Complex With
Adenosine 5' Triphosphate
Length = 697
Score = 32.3 bits (72), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 769 KSELCIALSNQSGNQHNHGRNFEIEEVACVNSDKTQACYLIANSKPDIVKGYVGKEMGS- 827
K E +A+ + G N G +F++ N+ + C L+ ++ G +G E G+
Sbjct: 468 KEETGMAMRIRVGQSMNMGSDFDVFAHITNNTAEEYVCRLLLCARTVSYNGILGPECGTK 527
Query: 828 YTCNLAIDPL----WPLC-MYELRGKC 849
Y NL ++P PLC +YE C
Sbjct: 528 YLLNLNLEPFSEKSVPLCILYEKYRDC 554
>pdb|1UNF|X Chain X, The Crystal Structure Of The Eukaryotic Fesod From Vigna
Unguiculata Suggests A New Enzymatic Mechanism
Length = 238
Score = 31.2 bits (69), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 545 NGQNLGSEPCSEQDASTSELLPRKSKNALNGISPQSNELMVSADEEEEACQLDLESVQPN 604
+G+N + P +++D ++L+ KS NA+N + +++ D E A LD ++ +P+
Sbjct: 155 DGENAANPPSADED---NKLVVIKSPNAVNPLVWGGYYPLLTIDVWEHAYYLDFQNRRPD 211
Query: 605 FEYQQKDQIAEGRQISTDYRHNNKLSA 631
+ D++ +S+ LSA
Sbjct: 212 YISVFMDKLVSWDAVSSRLEQAKALSA 238
>pdb|3UMG|A Chain A, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|B Chain B, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|C Chain C, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|D Chain D, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|E Chain E, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|F Chain F, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|G Chain G, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
pdb|3UMG|H Chain H, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Rha0230
Length = 254
Score = 31.2 bits (69), Expect = 4.9, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 1272 LYPSCLELVLMKARLQ--KHDFGDLSSVGFE-EALIKWPKGVPGIQCIWNQYVEYALQNG 1328
L+ L+ VL ++ + HD G+L + L WP VPG+ I +Y+ L NG
Sbjct: 81 LHRENLDFVLRESGIDPTNHDSGELDELARAWHVLTPWPDSVPGLTAIKAEYIIGPLSNG 140
>pdb|2NLZ|A Chain A, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|B Chain B, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|C Chain C, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|D Chain D, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
Length = 547
Score = 30.8 bits (68), Expect = 6.3, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 1581 VPVAPEYVWVEAAGILGNISSIEEISE--RFFKRALSVYPFSIKLWKCYYDLSKTK 1634
VP AP W E A + GN+ ++ R+ + V P K WK YD KT+
Sbjct: 119 VPGAPG-AWAELAKMYGNLPLAASLAPAIRYAEEGYPVTPTLAKYWKAAYDRVKTE 173
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 0.131 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 46,813,337
Number of Sequences: 62578
Number of extensions: 1903538
Number of successful extensions: 4117
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 4107
Number of HSP's gapped (non-prelim): 16
length of query: 1652
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1540
effective length of database: 7,964,601
effective search space: 12265485540
effective search space used: 12265485540
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: 58 (26.9 bits)