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= 016637
(385 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3APM|A Chain A, Crystal Structure Of The Human Snp Pad4 Protein
Length = 666
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 315 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 374
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 375 RNRGLKEFPIKRVMGPDFGYVTRGP 399
>pdb|3APN|A Chain A, Crystal Structure Of The Human Wild-Type Pad4 Protein
Length = 666
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 315 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 374
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 375 RNRGLKEFPIKRVMGPDFGYVTRGP 399
>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 = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 320 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 379
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 380 RNRGLKEFPIKRVMGPDFGYVTRGP 404
>pdb|1WD8|A Chain A, Calcium Free Form Of Human Peptidylarginine Deiminase
Type4 (Pad4)
Length = 670
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 319 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 378
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 379 RNRGLKEFPIKRVMGPDFGYVTRGP 403
>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 = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 317 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 376
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 377 RNRGLKEFPIKRVMGPDFGYVTRGP 401
>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 = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 319 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 378
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 379 RNRGLKEFPIKRVMGPDFGYVTRGP 403
>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 = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 48 SIYSVRRF--GVQSVVTTVKSSFVACPELPNGLDYWINPPSNLMHTMSDKELFWRASFVP 105
SI+ F V ++ K CPE N D W+ + + + + P
Sbjct: 320 SIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSP 379
Query: 106 R---VKEYPFKRVPKIAFMFLTKGP 127
R +KE+P KRV F ++T+GP
Sbjct: 380 RNRGLKEFPIKRVMGPDFGYVTRGP 404
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
0.324 0.139 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,376,180
Number of Sequences: 62578
Number of extensions: 531751
Number of successful extensions: 1361
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1361
Number of HSP's gapped (non-prelim): 7
length of query: 385
length of database: 14,973,337
effective HSP length: 101
effective length of query: 284
effective length of database: 8,652,959
effective search space: 2457440356
effective search space used: 2457440356
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)