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= 019992
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MHZ|D Chain D, Methane Monooxygenase Hydroxylase
pdb|1MHY|D Chain D, Methane Monooxygenase Hydroxylase
Length = 521
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 6/94 (6%)
Query: 203 TGFIIPLLMLFGSQKGFLQ--PQLPFIPFAVLLGPYLLLLSIQILTEMLTWHWQSPVWLV 260
+GFI +L ++ Q+PFIP L + LT W WL+
Sbjct: 395 SGFIPYQWLLANGHDVYIDRVSQVPFIPSLAKGTGSLRVHEFNGKKHSLTDDWGERQWLI 454
Query: 261 TPVVYESYRVLQLMRGLKLGAELSAPAWIVHTVR 294
P YE + V + G +L +E+ A H VR
Sbjct: 455 EPERYECHNVFEQYEGREL-SEVIAEG---HGVR 484
>pdb|1WD9|A Chain A, Calcium Bound Form Of Human Peptidylarginine Deiminase
Type4 (pad4)
pdb|1WDA|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase
Type4 (Pad4) In Complex With Benzoyl-L-Arginine Amide
Length = 670
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 619 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHAGTNVRRK-----PFSFKWWNMV 669
>pdb|2DEW|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H3 N-Terminal Tail Including Arg8
pdb|2DEX|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H3 N-Terminal Peptide Including
Arg17
pdb|2DEY|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H4 N-Terminal Tail Including Arg3
Length = 671
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 620 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHAGTNVRRK-----PFSFKWWNMV 670
>pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase-
Includes Complete Structure With Side-Chains (Except For
Disordered Regions)-Further Refined From Original
Deposition-Contains Additional Sequence Information
Length = 1265
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 96 KTEEVTDANNQPLVQLQFL-KWPMWLLGPCILLGTGMVPTLWLPI 139
K EVTD + PL++ Q L KW + L L+ G VP W P+
Sbjct: 1118 KYVEVTDPGDSPLLEGQVLEKWDVEALNE-RLIAEGKVPVAWKPL 1161
>pdb|3APM|A Chain A, Crystal Structure Of The Human Snp Pad4 Protein
Length = 666
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 615 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRK-----PFSFKWWNMV 665
>pdb|3APN|A Chain A, Crystal Structure Of The Human Wild-Type Pad4 Protein
Length = 666
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 615 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRK-----PFSFKWWNMV 665
>pdb|1WD8|A Chain A, Calcium Free Form Of Human Peptidylarginine Deiminase
Type4 (Pad4)
Length = 670
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 619 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRK-----PFSFKWWNMV 669
>pdb|4DKT|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With
N-Acetyl-L-Threonyl-L-Alpha-Aspartyl-N5-[(1e)-2-
Fluoroethanimidoyl]-L-Ornithinamide
Length = 668
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 617 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRK-----PFSFKWWNMV 667
>pdb|2DW5|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With
N-Alpha-Benzoyl-N5-(2-Fluoro-1-Iminoethyl)-L-Ornithine
Amide
pdb|3B1T|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With O-Cl-Amidine
pdb|3B1U|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With O-F-Amidine
Length = 671
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 144 LGPNIASLLSLIGLDCIFNIGATLFLLMADSCARSKNTTRACNSKPPFSYKFWNMV 199
L + SLL +GL C F + + N R PFS+K+WNMV
Sbjct: 620 LEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRK-----PFSFKWWNMV 670
>pdb|3TF5|A Chain A, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
pdb|3TF5|B Chain B, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
pdb|3TF5|C Chain C, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
Length = 493
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 76 KNSNIFETLSSDNTAEAPATKTEEVTDANNQPLVQLQFLKWPMWL 120
+NSN ++ ++ +T A + DAN +P + LQ L P +L
Sbjct: 118 QNSNGYKIVTEKSTPVRAAESIRRIFDANTKPNLNLQVLSNPEFL 162
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
0.323 0.136 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,520,112
Number of Sequences: 62578
Number of extensions: 377289
Number of successful extensions: 778
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 777
Number of HSP's gapped (non-prelim): 12
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)