0.012995
0.007503
0.000000
0.000000
0.015005
0.000000
0.000000
0.000000
0.007334
0.000000
0.000000
0.000000
Paetzel, M.
Lee, J.
Feldman, A.R.
Delmas, B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.000
90.000
120.000
76.953
76.953
136.347
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
282
24928
24937
10.1074/jbc.M701551200
17553791
Crystal structure of the VP4 protease from infectious pancreatic necrosis virus reveals the acyl-enzyme complex for an intermolecular self-cleavage reaction.
2007
DK
Acta Crystallogr.,Sect.F
1744-3091
F62
1235
1238
10.1107/S1744309106046070
17142905
Purification, crystallization and preliminary X-ray analysis of truncated and mutant forms of VP4 protease from infectious pancreatic necrosis virus.
2006
10.2210/pdb2pnm/pdb
pdb_00002pnm
100
1
mirrors
CCD
2006-04-23
ADSC QUANTUM 4
GRAPHITE
SINGLE WAVELENGTH
M
x-ray
1
0.9792
1.0
X8C
NSLS
0.9792
SYNCHROTRON
NSLS BEAMLINE X8C
20593.791
Protease VP4
3.4.21.-
VP4hex (residues 524-716)
K674A
1
man
polymer
18.015
water
159
nat
water
no
yes
LESANYEEVELPPPSKGVIVPVVHTVKSAPGEAFGSLAIIIPGEYPELLDANQQVLSHFANDTGSVWGIGEDIPFEGDN
(MSE)CYTALPLKEIKRNGNIVVEKIFAGPI(MSE)GPSAQLGLSLLVNDIEDGVPR(MSE)VFTGEIADDEETIIPICG
VDIAAIAAHEQGLPLIGNQPGVDEEVRNTSLAAHLIQTGTLPVQRA
LESANYEEVELPPPSKGVIVPVVHTVKSAPGEAFGSLAIIIPGEYPELLDANQQVLSHFANDTGSVWGIGEDIPFEGDNM
CYTALPLKEIKRNGNIVVEKIFAGPIMGPSAQLGLSLLVNDIEDGVPRMVFTGEIADDEETIIPICGVDIAAIAAHEQGL
PLIGNQPGVDEEVRNTSLAAHLIQTGTLPVQRA
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Aquabirnavirus
Infectious pancreatic necrosis virus
serotype SP
Escherichia
Escherichia coli
sample
11005
Infectious pancreatic necrosis virus - Sp
469008
Escherichia coli BL21(DE3)
BL21(DE3)
plasmid
pET24a
1
2.83
56.50
VAPOR DIFFUSION, SITTING DROP
8.5
0.1M Tris-HCl pH 8.5, 22% PEG 2000 MME, 0.45M Calcium acetate, VAPOR DIFFUSION, SITTING DROP, temperature 291K
291
database_2
struct_conn
struct_ref_seq_dif
repository
Initial release
Version format compliance
Advisory
Version format compliance
Database references
Derived calculations
1
0
2007-06-05
1
1
2007-10-08
1
2
2011-07-13
1
3
2021-10-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
VP4 protease from another birnavirus (blotched snakehead virus, BSNV)
VP4 from IPNV in the space group P1 (acyl-enzyme)
RCSB
Y
RCSB
2007-04-24
REL
REL
HOH
water
HOH
1
2
HOH
HOH
717
A
HOH
2
2
HOH
HOH
718
A
HOH
3
2
HOH
HOH
719
A
HOH
4
2
HOH
HOH
720
A
HOH
5
2
HOH
HOH
721
A
HOH
6
2
HOH
HOH
722
A
HOH
7
2
HOH
HOH
723
A
HOH
8
2
HOH
HOH
724
A
HOH
9
2
HOH
HOH
725
A
HOH
10
2
HOH
HOH
726
A
HOH
11
2
HOH
HOH
727
A
HOH
12
2
HOH
HOH
728
A
HOH
13
2
HOH
HOH
729
A
HOH
14
2
HOH
HOH
730
A
HOH
15
2
HOH
HOH
731
A
HOH
16
2
HOH
HOH
732
A
HOH
17
2
HOH
HOH
733
A
HOH
18
2
HOH
HOH
734
A
HOH
19
2
HOH
HOH
735
A
HOH
20
2
HOH
HOH
736
A
HOH
21
2
HOH
HOH
737
A
HOH
22
2
HOH
HOH
738
A
HOH
23
2
HOH
HOH
739
A
HOH
24
2
HOH
HOH
740
A
HOH
25
2
HOH
HOH
741
A
HOH
26
2
HOH
HOH
742
A
HOH
27
2
HOH
HOH
743
A
HOH
28
2
HOH
HOH
744
A
HOH
29
2
HOH
HOH
745
A
HOH
30
2
HOH
HOH
746
A
HOH
31
2
HOH
HOH
747
A
HOH
32
2
HOH
HOH
748
A
HOH
33
2
HOH
HOH
749
A
HOH
34
2
HOH
HOH
750
A
HOH
35
2
HOH
HOH
751
A
HOH
36
2
HOH
HOH
752
A
HOH
37
2
HOH
HOH
753
A
HOH
38
2
HOH
HOH
754
A
HOH
39
2
HOH
HOH
755
A
HOH
40
2
HOH
HOH
756
A
HOH
41
2
HOH
HOH
757
A
HOH
42
2
HOH
HOH
758
A
HOH
43
2
HOH
HOH
759
A
HOH
44
2
HOH
HOH
760
A
HOH
45
2
HOH
HOH
761
A
HOH
46
2
HOH
HOH
762
A
HOH
47
2
HOH
HOH
763
A
HOH
48
2
HOH
HOH
764
A
HOH
49
2
HOH
HOH
765
A
HOH
50
2
HOH
HOH
766
A
HOH
51
2
HOH
HOH
767
A
HOH
52
2
HOH
HOH
768
A
HOH
53
2
HOH
HOH
769
A
HOH
54
2
HOH
HOH
770
A
HOH
55
2
HOH
HOH
771
A
HOH
56
2
HOH
HOH
772
A
HOH
57
2
HOH
HOH
773
A
HOH
58
2
HOH
HOH
774
A
HOH
59
2
HOH
HOH
775
A
HOH
60
2
HOH
HOH
776
A
HOH
61
2
HOH
HOH
777
A
HOH
62
2
HOH
HOH
778
A
HOH
63
2
HOH
HOH
779
A
HOH
64
2
HOH
HOH
780
A
HOH
65
2
HOH
HOH
781
A
HOH
66
2
HOH
HOH
782
A
HOH
67
2
HOH
HOH
783
A
HOH
68
2
HOH
HOH
784
A
HOH
69
2
HOH
HOH
785
A
HOH
70
2
HOH
HOH
786
A
HOH
71
2
HOH
HOH
787
A
HOH
72
2
HOH
HOH
788
A
HOH
73
2
HOH
HOH
789
A
HOH
74
2
HOH
HOH
790
A
HOH
75
2
HOH
HOH
791
A
HOH
76
2
HOH
HOH
792
A
HOH
77
2
HOH
HOH
793
A
HOH
78
2
HOH
HOH
794
A
HOH
79
2
HOH
HOH
795
A
HOH
80
2
HOH
HOH
796
A
HOH
81
2
HOH
HOH
797
A
HOH
82
2
HOH
HOH
798
A
HOH
83
2
HOH
HOH
799
A
HOH
84
2
HOH
HOH
800
A
HOH
85
2
HOH
HOH
801
A
HOH
86
2
HOH
HOH
802
A
HOH
87
2
HOH
HOH
803
A
HOH
88
2
HOH
HOH
804
A
HOH
89
2
HOH
HOH
805
A
HOH
90
2
HOH
HOH
806
A
HOH
91
2
HOH
HOH
807
A
HOH
92
2
HOH
HOH
808
A
HOH
93
2
HOH
HOH
809
A
HOH
94
2
HOH
HOH
810
A
HOH
95
2
HOH
HOH
811
A
HOH
96
2
HOH
HOH
812
A
HOH
97
2
HOH
HOH
813
A
HOH
98
2
HOH
HOH
814
A
HOH
99
2
HOH
HOH
815
A
HOH
100
2
HOH
HOH
816
A
HOH
101
2
HOH
HOH
817
A
HOH
102
2
HOH
HOH
818
A
HOH
103
2
HOH
HOH
819
A
HOH
104
2
HOH
HOH
820
A
HOH
105
2
HOH
HOH
821
A
HOH
106
2
HOH
HOH
822
A
HOH
107
2
HOH
HOH
823
A
HOH
108
2
HOH
HOH
824
A
HOH
109
2
HOH
HOH
825
A
HOH
110
2
HOH
HOH
826
A
HOH
111
2
HOH
HOH
827
A
HOH
112
2
HOH
HOH
828
A
HOH
113
2
HOH
HOH
829
A
HOH
114
2
HOH
HOH
830
A
HOH
115
2
HOH
HOH
831
A
HOH
116
2
HOH
HOH
832
A
HOH
117
2
HOH
HOH
833
A
HOH
118
2
HOH
HOH
834
A
HOH
119
2
HOH
HOH
835
A
HOH
120
2
HOH
HOH
836
A
HOH
121
2
HOH
HOH
837
A
HOH
122
2
HOH
HOH
838
A
HOH
123
2
HOH
HOH
839
A
HOH
124
2
HOH
HOH
840
A
HOH
125
2
HOH
HOH
841
A
HOH
126
2
HOH
HOH
842
A
HOH
127
2
HOH
HOH
843
A
HOH
128
2
HOH
HOH
844
A
HOH
129
2
HOH
HOH
845
A
HOH
130
2
HOH
HOH
846
A
HOH
131
2
HOH
HOH
847
A
HOH
132
2
HOH
HOH
848
A
HOH
133
2
HOH
HOH
849
A
HOH
134
2
HOH
HOH
850
A
HOH
135
2
HOH
HOH
851
A
HOH
136
2
HOH
HOH
852
A
HOH
137
2
HOH
HOH
853
A
HOH
138
2
HOH
HOH
854
A
HOH
139
2
HOH
HOH
855
A
HOH
140
2
HOH
HOH
856
A
HOH
141
2
HOH
HOH
857
A
HOH
142
2
HOH
HOH
858
A
HOH
143
2
HOH
HOH
859
A
HOH
144
2
HOH
HOH
860
A
HOH
145
2
HOH
HOH
861
A
HOH
146
2
HOH
HOH
862
A
HOH
147
2
HOH
HOH
863
A
HOH
148
2
HOH
HOH
864
A
HOH
149
2
HOH
HOH
865
A
HOH
150
2
HOH
HOH
866
A
HOH
151
2
HOH
HOH
867
A
HOH
152
2
HOH
HOH
868
A
HOH
153
2
HOH
HOH
869
A
HOH
154
2
HOH
HOH
870
A
HOH
155
2
HOH
HOH
871
A
HOH
156
2
HOH
HOH
872
A
HOH
157
2
HOH
HOH
873
A
HOH
158
2
HOH
HOH
874
A
HOH
159
2
HOH
HOH
875
A
LEU
524
n
1
LEU
524
A
GLU
525
n
2
GLU
525
A
SER
526
n
3
SER
526
A
ALA
527
n
4
ALA
527
A
ASN
528
n
5
ASN
528
A
TYR
529
n
6
TYR
529
A
GLU
530
n
7
GLU
530
A
GLU
531
n
8
GLU
531
A
VAL
532
n
9
VAL
532
A
GLU
533
n
10
GLU
533
A
LEU
534
n
11
LEU
534
A
PRO
535
n
12
PRO
535
A
PRO
536
n
13
PRO
536
A
PRO
537
n
14
PRO
537
A
SER
538
n
15
SER
538
A
LYS
539
n
16
LYS
539
A
GLY
540
n
17
GLY
540
A
VAL
541
n
18
VAL
541
A
ILE
542
n
19
ILE
542
A
VAL
543
n
20
VAL
543
A
PRO
544
n
21
PRO
544
A
VAL
545
n
22
VAL
545
A
VAL
546
n
23
VAL
546
A
HIS
547
n
24
HIS
547
A
n
25
548
A
n
26
549
A
n
27
550
A
n
28
551
A
n
29
552
A
n
30
553
A
n
31
554
A
GLU
555
n
32
GLU
555
A
ALA
556
n
33
ALA
556
A
PHE
557
n
34
PHE
557
A
GLY
558
n
35
GLY
558
A
SER
559
n
36
SER
559
A
LEU
560
n
37
LEU
560
A
ALA
561
n
38
ALA
561
A
ILE
562
n
39
ILE
562
A
ILE
563
n
40
ILE
563
A
ILE
564
n
41
ILE
564
A
PRO
565
n
42
PRO
565
A
GLY
566
n
43
GLY
566
A
GLU
567
n
44
GLU
567
A
TYR
568
n
45
TYR
568
A
PRO
569
n
46
PRO
569
A
GLU
570
n
47
GLU
570
A
LEU
571
n
48
LEU
571
A
LEU
572
n
49
LEU
572
A
ASP
573
n
50
ASP
573
A
ALA
574
n
51
ALA
574
A
ASN
575
n
52
ASN
575
A
GLN
576
n
53
GLN
576
A
GLN
577
n
54
GLN
577
A
VAL
578
n
55
VAL
578
A
LEU
579
n
56
LEU
579
A
SER
580
n
57
SER
580
A
HIS
581
n
58
HIS
581
A
PHE
582
n
59
PHE
582
A
ALA
583
n
60
ALA
583
A
ASN
584
n
61
ASN
584
A
ASP
585
n
62
ASP
585
A
THR
586
n
63
THR
586
A
GLY
587
n
64
GLY
587
A
SER
588
n
65
SER
588
A
VAL
589
n
66
VAL
589
A
TRP
590
n
67
TRP
590
A
GLY
591
n
68
GLY
591
A
ILE
592
n
69
ILE
592
A
GLY
593
n
70
GLY
593
A
GLU
594
n
71
GLU
594
A
ASP
595
n
72
ASP
595
A
ILE
596
n
73
ILE
596
A
PRO
597
n
74
PRO
597
A
PHE
598
n
75
PHE
598
A
GLU
599
n
76
GLU
599
A
GLY
600
n
77
GLY
600
A
ASP
601
n
78
ASP
601
A
ASN
602
n
79
ASN
602
A
MSE
603
n
80
MSE
603
A
CYS
604
n
81
CYS
604
A
TYR
605
n
82
TYR
605
A
THR
606
n
83
THR
606
A
ALA
607
n
84
ALA
607
A
LEU
608
n
85
LEU
608
A
PRO
609
n
86
PRO
609
A
LEU
610
n
87
LEU
610
A
LYS
611
n
88
LYS
611
A
GLU
612
n
89
GLU
612
A
ILE
613
n
90
ILE
613
A
LYS
614
n
91
LYS
614
A
ALA
615
n
92
ARG
615
A
ASN
616
n
93
ASN
616
A
GLY
617
n
94
GLY
617
A
ASN
618
n
95
ASN
618
A
ILE
619
n
96
ILE
619
A
VAL
620
n
97
VAL
620
A
VAL
621
n
98
VAL
621
A
GLU
622
n
99
GLU
622
A
LYS
623
n
100
LYS
623
A
ILE
624
n
101
ILE
624
A
PHE
625
n
102
PHE
625
A
ALA
626
n
103
ALA
626
A
GLY
627
n
104
GLY
627
A
PRO
628
n
105
PRO
628
A
ILE
629
n
106
ILE
629
A
MSE
630
n
107
MSE
630
A
GLY
631
n
108
GLY
631
A
PRO
632
n
109
PRO
632
A
SER
633
n
110
SER
633
A
ALA
634
n
111
ALA
634
A
GLN
635
n
112
GLN
635
A
LEU
636
n
113
LEU
636
A
GLY
637
n
114
GLY
637
A
LEU
638
n
115
LEU
638
A
SER
639
n
116
SER
639
A
LEU
640
n
117
LEU
640
A
LEU
641
n
118
LEU
641
A
VAL
642
n
119
VAL
642
A
ASN
643
n
120
ASN
643
A
ASP
644
n
121
ASP
644
A
ILE
645
n
122
ILE
645
A
GLU
646
n
123
GLU
646
A
ASP
647
n
124
ASP
647
A
GLY
648
n
125
GLY
648
A
VAL
649
n
126
VAL
649
A
PRO
650
n
127
PRO
650
A
ARG
651
n
128
ARG
651
A
MSE
652
n
129
MSE
652
A
VAL
653
n
130
VAL
653
A
PHE
654
n
131
PHE
654
A
THR
655
n
132
THR
655
A
GLY
656
n
133
GLY
656
A
GLU
657
n
134
GLU
657
A
ILE
658
n
135
ILE
658
A
ALA
659
n
136
ALA
659
A
ASP
660
n
137
ASP
660
A
ASP
661
n
138
ASP
661
A
GLU
662
n
139
GLU
662
A
GLU
663
n
140
GLU
663
A
THR
664
n
141
THR
664
A
ILE
665
n
142
ILE
665
A
ILE
666
n
143
ILE
666
A
PRO
667
n
144
PRO
667
A
ILE
668
n
145
ILE
668
A
CYS
669
n
146
CYS
669
A
GLY
670
n
147
GLY
670
A
VAL
671
n
148
VAL
671
A
ASP
672
n
149
ASP
672
A
ILE
673
n
150
ILE
673
A
ALA
674
n
151
ALA
674
A
ALA
675
n
152
ALA
675
A
ILE
676
n
153
ILE
676
A
ALA
677
n
154
ALA
677
A
ALA
678
n
155
ALA
678
A
HIS
679
n
156
HIS
679
A
GLU
680
n
157
GLU
680
A
GLN
681
n
158
GLN
681
A
GLY
682
n
159
GLY
682
A
LEU
683
n
160
LEU
683
A
PRO
684
n
161
PRO
684
A
LEU
685
n
162
LEU
685
A
ILE
686
n
163
ILE
686
A
GLY
687
n
164
GLY
687
A
ASN
688
n
165
ASN
688
A
GLN
689
n
166
GLN
689
A
PRO
690
n
167
PRO
690
A
GLY
691
n
168
GLY
691
A
VAL
692
n
169
VAL
692
A
ASP
693
n
170
ASP
693
A
GLU
694
n
171
GLU
694
A
GLU
695
n
172
GLU
695
A
VAL
696
n
173
VAL
696
A
ALA
697
n
174
ARG
697
A
ASN
698
n
175
ASN
698
A
THR
699
n
176
THR
699
A
SER
700
n
177
SER
700
A
LEU
701
n
178
LEU
701
A
ALA
702
n
179
ALA
702
A
ALA
703
n
180
ALA
703
A
HIS
704
n
181
HIS
704
A
LEU
705
n
182
LEU
705
A
ILE
706
n
183
ILE
706
A
GLN
707
n
184
GLN
707
A
THR
708
n
185
THR
708
A
GLY
709
n
186
GLY
709
A
THR
710
n
187
THR
710
A
LEU
711
n
188
LEU
711
A
n
189
712
A
n
190
713
A
n
191
714
A
n
192
715
A
n
193
716
A
10.4332
-0.9068
19.1667
6.0134
-13.7902
59.9802
0.4810
1.9647
-0.0633
0.2684
-2.5608
-1.8074
0.7832
3.5542
2.0798
0.0335
0.0847
-0.0650
0.1495
0.0495
0.2112
refined
21.1153
-10.9250
-4.3224
X-RAY DIFFRACTION
2.3896
1.7772
0.7575
2.8574
-1.0352
2.4443
0.1001
-0.0105
0.0116
0.1565
0.0027
-0.0275
0.0201
0.0445
-0.1028
0.0508
0.0037
-0.0350
0.0215
-0.0026
0.0490
refined
6.3221
-15.6809
-9.9954
X-RAY DIFFRACTION
21.5356
1.5667
11.7471
10.5080
26.7290
70.8178
0.3417
-1.4330
1.1332
1.1197
-0.9614
0.0476
-3.7158
1.1746
0.6197
0.4876
-0.4497
0.0037
0.2179
0.0425
-0.0821
refined
1.1988
-16.2132
7.9786
X-RAY DIFFRACTION
8.0595
0.9780
-3.3920
1.5605
-0.1851
7.4804
0.2814
-0.2098
-0.3623
-0.0563
0.0966
-0.2622
0.3771
0.2344
-0.3780
0.0806
-0.0323
-0.0750
0.0022
-0.0184
0.0386
refined
8.0194
-20.9752
-7.9427
X-RAY DIFFRACTION
7.9079
3.2007
6.5021
10.1286
6.4649
15.1535
0.0976
0.7854
-0.1886
-0.5469
0.5139
-0.2051
-0.1506
1.1165
-0.6114
0.0233
0.0090
-0.0431
0.0166
-0.0650
0.0163
refined
16.2330
-16.0001
-5.9110
X-RAY DIFFRACTION
2.2408
2.8782
2.1089
4.0574
1.8614
3.9762
0.3713
0.0955
-0.6261
0.3347
0.2165
-0.4004
0.8631
0.5275
-0.5878
0.1384
0.0878
-0.1945
-0.0539
-0.0671
0.1190
refined
15.4114
-27.9351
-2.6099
X-RAY DIFFRACTION
0.2742
-0.2491
1.2726
6.8589
-4.4238
7.5169
0.4205
0.2228
-0.6434
0.2006
0.3691
-0.3180
1.2348
0.1234
-0.7896
0.2533
0.0739
-0.2735
-0.1646
-0.0952
0.1496
refined
11.0429
-35.9201
-6.4777
X-RAY DIFFRACTION
11.5063
-2.8442
5.3630
10.9494
-1.1927
2.5014
0.5030
0.7434
-0.4375
-0.5226
-0.0522
-0.6154
0.2525
0.3035
-0.4508
0.0691
0.0027
-0.0471
0.0218
-0.0114
0.0693
refined
10.2576
-22.1995
-8.4629
X-RAY DIFFRACTION
4.3932
2.1386
7.8081
3.5074
-0.2788
20.6267
-0.1789
0.1087
0.2684
0.0105
0.0876
0.3391
-0.3520
-0.2119
0.0913
-0.0120
0.0025
-0.0213
-0.0281
0.0209
0.0615
refined
0.3128
-10.9620
-13.2234
X-RAY DIFFRACTION
4.2008
-0.0712
8.6935
0.1763
0.5183
20.5215
0.0901
-0.1353
-0.0152
0.1059
0.1242
0.0515
-0.0443
-0.3097
-0.2143
0.0140
-0.0319
-0.0360
-0.0047
0.0013
0.0826
refined
8.7852
-11.5491
-2.9362
X-RAY DIFFRACTION
1.6482
-0.1884
0.4285
2.8418
0.8671
1.2529
0.7128
-0.5875
-0.2482
0.5985
-0.3595
0.0751
1.0652
-0.2901
-0.3533
0.2005
-0.0807
-0.1690
-0.0534
0.0574
0.0098
refined
7.4994
-25.2787
3.6909
X-RAY DIFFRACTION
3.6338
1.1498
1.1961
3.2545
2.8027
7.0625
0.1913
0.2187
-0.7651
0.0102
0.0719
-0.1353
0.8220
-0.0926
-0.2632
0.1879
-0.0532
-0.1793
-0.0902
0.0268
0.1090
refined
2.9733
-32.2240
-9.0907
X-RAY DIFFRACTION
28.9802
-8.1801
-6.4585
9.3094
2.3266
15.2791
-0.0210
1.3867
-0.4489
-0.3337
-0.2044
0.1593
0.9058
-0.3391
0.2254
0.1597
-0.0780
-0.1093
0.0716
0.0298
0.0452
refined
-0.7621
-24.1751
-16.0097
X-RAY DIFFRACTION
2.2150
0.2231
0.8787
1.6708
1.9198
2.3832
0.5006
-0.4407
-0.4744
0.5837
-0.1219
0.1565
0.8075
-0.4158
-0.3786
0.2342
-0.1834
-0.1283
-0.0115
0.0802
-0.0231
refined
-1.8673
-30.1760
-2.5554
X-RAY DIFFRACTION
7.4756
-7.2353
-3.4130
13.6330
2.6076
9.6195
0.2075
-0.7762
-1.0556
0.8189
0.3894
0.0635
1.5263
0.0577
-0.5968
0.3068
-0.2748
-0.2624
-0.1029
0.1631
0.0433
refined
-1.9529
-36.1388
1.2816
X-RAY DIFFRACTION
3.8597
-5.8557
2.3130
13.5516
-4.5968
1.6395
0.5263
-0.6711
-0.0271
1.0681
-0.1090
0.6112
-0.0408
-0.8693
-0.4173
0.0568
-0.1606
0.0442
0.2044
0.0142
-0.0619
refined
-6.9860
-18.4331
2.5434
X-RAY DIFFRACTION
14.0194
6.6928
0.5778
10.4409
-4.6187
3.3300
0.0552
-0.1556
0.5542
0.4880
0.0182
0.3365
-0.1288
-0.6572
-0.0734
0.0060
-0.0442
0.0118
0.1162
0.0185
-0.0310
refined
-6.8078
-17.3037
-4.3581
X-RAY DIFFRACTION
1.1385
0.8885
1.4605
4.7595
-1.7303
3.8997
0.5289
-0.4723
-0.3559
0.3668
0.0106
0.5677
0.7695
-1.0494
-0.5395
0.1096
-0.2543
-0.0130
0.1527
0.0784
-0.0105
refined
-10.0336
-28.5177
0.5611
X-RAY DIFFRACTION
6.1249
-1.7067
3.3257
7.3558
0.5456
6.9028
0.7375
-0.6140
-0.5638
0.0094
-0.1648
0.7543
0.5926
-0.8481
-0.5728
0.1199
-0.2286
-0.1875
-0.0361
0.1034
0.1090
refined
-8.8069
-33.8536
-7.9715
X-RAY DIFFRACTION
16.0323
1.0525
12.8750
22.7602
-2.2856
22.8647
0.1082
-0.2069
0.8279
0.2932
-0.1164
0.2992
0.2567
-1.6994
0.0083
0.0727
-0.1911
-0.1038
0.0094
0.0714
-0.0570
refined
-10.9331
-26.7777
-14.0120
X-RAY DIFFRACTION
A
524
A
1
A
528
A
5
X-RAY DIFFRACTION
1
ALL
A
529
A
6
A
545
A
22
X-RAY DIFFRACTION
2
ALL
A
546
A
23
A
558
A
35
X-RAY DIFFRACTION
3
ALL
A
559
A
36
A
567
A
44
X-RAY DIFFRACTION
4
ALL
A
568
A
45
A
573
A
50
X-RAY DIFFRACTION
5
ALL
A
574
A
51
A
594
A
71
X-RAY DIFFRACTION
6
ALL
A
595
A
72
A
602
A
79
X-RAY DIFFRACTION
7
ALL
A
603
A
80
A
610
A
87
X-RAY DIFFRACTION
8
ALL
A
611
A
88
A
618
A
95
X-RAY DIFFRACTION
9
ALL
A
619
A
96
A
625
A
102
X-RAY DIFFRACTION
10
ALL
A
626
A
103
A
634
A
111
X-RAY DIFFRACTION
11
ALL
A
635
A
112
A
645
A
122
X-RAY DIFFRACTION
12
ALL
A
646
A
123
A
651
A
128
X-RAY DIFFRACTION
13
ALL
A
652
A
129
A
659
A
136
X-RAY DIFFRACTION
14
ALL
A
660
A
137
A
671
A
148
X-RAY DIFFRACTION
15
ALL
A
672
A
149
A
679
A
156
X-RAY DIFFRACTION
16
ALL
A
680
A
157
A
685
A
162
X-RAY DIFFRACTION
17
ALL
A
686
A
163
A
693
A
170
X-RAY DIFFRACTION
18
ALL
A
694
A
171
A
705
A
182
X-RAY DIFFRACTION
19
ALL
A
706
A
183
A
711
A
188
X-RAY DIFFRACTION
20
ALL
author_defined_assembly
1
monomeric
A
MSE
603
SELENOMETHIONINE
A
MSE
80
MET
A
MSE
630
SELENOMETHIONINE
A
MSE
107
MET
A
MSE
652
SELENOMETHIONINE
A
MSE
129
MET
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
LEU
534
A
N
LEU
11
A
O
ILE
619
A
O
ILE
96
A
O
VAL
620
A
O
VAL
97
A
N
GLU
612
A
N
GLU
89
A
O
LEU
608
A
O
LEU
85
A
N
ILE
562
A
N
ILE
39
A
O
PHE
557
A
O
PHE
34
A
N
HIS
547
A
N
HIS
24
A
N
LEU
534
A
N
LEU
11
A
O
ILE
619
A
O
ILE
96
A
O
VAL
620
A
O
VAL
97
A
N
GLU
612
A
N
GLU
89
A
O
ALA
607
A
O
ALA
84
A
N
TRP
590
A
N
TRP
67
A
O
VAL
589
A
O
VAL
66
A
N
SER
580
A
N
SER
57
A
N
HIS
581
A
N
HIS
58
A
O
ILE
596
A
O
ILE
73
A
N
VAL
653
A
N
VAL
130
A
O
ILE
686
A
O
ILE
163
A
N
GLY
687
A
N
GLY
164
A
O
GLU
694
A
O
GLU
171
A
N
GLU
657
A
N
GLU
134
A
O
ILE
666
A
O
ILE
143
1
A
CG
GLU
555
A
CG
GLU
32
1
Y
1
A
CD
GLU
555
A
CD
GLU
32
1
Y
1
A
OE1
GLU
555
A
OE1
GLU
32
1
Y
1
A
OE2
GLU
555
A
OE2
GLU
32
1
Y
1
A
CG
ARG
615
A
CG
ARG
92
1
Y
1
A
CD
ARG
615
A
CD
ARG
92
1
Y
1
A
NE
ARG
615
A
NE
ARG
92
1
Y
1
A
CZ
ARG
615
A
CZ
ARG
92
1
Y
1
A
NH1
ARG
615
A
NH1
ARG
92
1
Y
1
A
NH2
ARG
615
A
NH2
ARG
92
1
Y
1
A
CG
ARG
697
A
CG
ARG
174
1
Y
1
A
CD
ARG
697
A
CD
ARG
174
1
Y
1
A
NE
ARG
697
A
NE
ARG
174
1
Y
1
A
CZ
ARG
697
A
CZ
ARG
174
1
Y
1
A
NH1
ARG
697
A
NH1
ARG
174
1
Y
1
A
NH2
ARG
697
A
NH2
ARG
174
1
Y
1
A
THR
548
A
THR
25
1
Y
1
A
VAL
549
A
VAL
26
1
Y
1
A
LYS
550
A
LYS
27
1
Y
1
A
SER
551
A
SER
28
1
Y
1
A
ALA
552
A
ALA
29
1
Y
1
A
PRO
553
A
PRO
30
1
Y
1
A
GLY
554
A
GLY
31
1
Y
1
A
PRO
712
A
PRO
189
1
Y
1
A
VAL
713
A
VAL
190
1
Y
1
A
GLN
714
A
GLN
191
1
Y
1
A
ARG
715
A
ARG
192
1
Y
1
A
ALA
716
A
ALA
193
1
Y
1
A
A
O
O
HOH
HOH
778
820
2.05
1
A
ALA
556
-47.64
156.66
1
A
GLU
612
-172.83
148.76
1
A
GLU
663
-142.67
-43.57
1
A
THR
710
-140.31
-152.60
23.945
0.020
0.010
0.000
0.020
0.000
-0.030
0.943
0.912
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.235
0.182
0.200
0.184
2.300
25.52
538
11248
11186
4.800
99.840
9.271
0.123
RANDOM
LIKELY RESIDUAL
1
Isotropic
THROUGHOUT
0.00
SAD
0.242
0.207
0.800
0.800
1.400
MAXIMUM LIKELIHOOD
MASK
2.300
25.52
159
1496
0
0
1337
0.015
0.022
1367
1.476
1.983
1869
5.954
5.000
179
39.848
27.368
57
14.255
15.000
212
5.175
15.000
1
0.100
0.200
221
0.005
0.020
1042
0.214
0.200
606
0.307
0.200
944
0.179
0.200
145
0.220
0.200
25
0.220
0.200
17
0.924
1.500
927
1.434
2.000
1454
2.001
3.000
490
2.910
4.500
415
0.234
0.170
2.360
44
750
794
20
99.750
2.3
47.7
2PNM
11248
11248
2.0
2.0
0.076
0.076
1
23.5
11.5
99.9
0.186
2.30
2.42
9.8
1584
1
11.9
99.8
refinement
Murshudov, G.N.
ccp4@dl.ac.uk
Fortran_77
http://www.ccp4.ac.uk/main.html
REFMAC
program
5.2.0019
data extraction
PDB
sw-help@rcsb.rutgers.edu
April. 3, 2006
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
2.000
data collection
HKL-2000
data reduction
HKL-2000
data scaling
HKL-2000
phasing
SHARP
N
Crystal Structure of VP4 protease from infectious pancreatic necrosis virus (IPNV) in space group P6122
1
N
N
2
N
N
This enzymes is a monomer in solution during purification.
A
TYR
568
A
TYR
45
HELX_P
A
LEU
572
A
LEU
49
5
1
5
A
ASP
573
A
ASP
50
HELX_P
A
GLN
577
A
GLN
54
5
2
5
A
ALA
634
A
ALA
111
HELX_P
A
ASP
644
A
ASP
121
1
3
11
A
GLY
670
A
GLY
147
HELX_P
A
GLU
680
A
GLU
157
1
4
11
A
ASN
698
A
ASN
175
HELX_P
A
GLY
709
A
GLY
186
1
5
12
covale
1.328
both
A
ASN
602
A
C
ASN
79
1_555
A
MSE
603
A
N
MSE
80
1_555
covale
1.321
both
A
MSE
603
A
C
MSE
80
1_555
A
CYS
604
A
N
CYS
81
1_555
covale
1.332
both
A
ILE
629
A
C
ILE
106
1_555
A
MSE
630
A
N
MSE
107
1_555
covale
1.328
both
A
MSE
630
A
C
MSE
107
1_555
A
GLY
631
A
N
GLY
108
1_555
covale
1.336
both
A
ARG
651
A
C
ARG
128
1_555
A
MSE
652
A
N
MSE
129
1_555
covale
1.329
both
A
MSE
652
A
C
MSE
129
1_555
A
VAL
653
A
N
VAL
130
1_555
HYDROLASE
protease, Ser/Lys dyad, viral protease, hydrolase
POLS_IPNVS
UNP
1
524
Q703G9
LESANYEEVELPPPSKGVIVPVVHTVKSAPGEAFGSLAIIIPGEYPELLDANQQVLSHFANDTGSVWGIGEDIPFEGDNM
CYTALPLKEIKRNGNIVVEKIFAGPIMGPSAQLGLSLLVNDIEDGVPRMVFTGEIADDEETIIPICGVDIKAIAAHEQGL
PLIGNQPGVDEEVRNTSLAAHLIQTGTLPVQRA
524
716
2PNM
524
716
Q703G9
A
1
1
193
1
MET
modified residue
MSE
603
2PNM
A
Q703G9
UNP
603
80
1
MET
modified residue
MSE
630
2PNM
A
Q703G9
UNP
630
107
1
MET
modified residue
MSE
652
2PNM
A
Q703G9
UNP
652
129
1
LYS
engineered mutation
ALA
674
2PNM
A
Q703G9
UNP
674
151
5
6
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
parallel
parallel
anti-parallel
A
VAL
532
A
VAL
9
A
LEU
534
A
LEU
11
A
ILE
619
A
ILE
96
A
VAL
621
A
VAL
98
A
MSE
603
A
MSE
80
A
ILE
613
A
ILE
90
A
PHE
557
A
PHE
34
A
PRO
565
A
PRO
42
A
VAL
541
A
VAL
18
A
HIS
547
A
HIS
24
A
VAL
532
A
VAL
9
A
LEU
534
A
LEU
11
A
ILE
619
A
ILE
96
A
VAL
621
A
VAL
98
A
MSE
603
A
MSE
80
A
ILE
613
A
ILE
90
A
GLY
587
A
GLY
64
A
TRP
590
A
TRP
67
A
LEU
579
A
LEU
56
A
ALA
583
A
ALA
60
A
ILE
596
A
ILE
73
A
GLU
599
A
GLU
76
A
VAL
653
A
VAL
130
A
PHE
654
A
PHE
131
A
LEU
685
A
LEU
162
A
GLY
687
A
GLY
164
A
GLU
694
A
GLU
171
A
GLU
695
A
GLU
172
A
GLU
657
A
GLU
134
A
ILE
658
A
ILE
135
A
ILE
665
A
ILE
142
A
ILE
666
A
ILE
143
178
P 61 2 2