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2Q4G
Asym. Unit
Info
Asym.Unit (1.5 MB)
Biol.Unit 1 (198 KB)
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Models
(8 )
Title
:
ENSEMBLE REFINEMENT OF THE PROTEIN CRYSTAL STRUCTURE OF HUMAN RIBONUCLEASE INHIBITOR COMPLEXED WITH RIBONUCLEASE I
Authors
:
E. J. Levin, D. A. Kondrashov, G. E. Wesenberg, G. N. Phillips Jr. , Cent Eukaryotic Structural Genomics (Cesg)
Date
:
31 May 07 (Deposition) - 19 Jun 07 (Release) - 10 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : W,X,Y,Z (8 x)
Biol. Unit 1: W,X,Y,Z (1x)
Keywords
:
Ensemble Refinement, Refinement Methodology Development, Ribonuclease-Inhibitor Complex, Leucine-Rich Repeat, Enzyme- Inhibitor Complex, Structural Genomics, Protein Structure Initiative, Psi, Center For Eukaryotic Structural Genomics, Cesg, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. J. Johnson, J. G. Mccoy, C. A. Bingman, G. N. Phillips Jr. , R. T. Raines
Inhibition Of Human Pancreatic Ribonuclease By The Human Ribonuclease Inhibitor Protein.
J. Mol. Biol. V. 368 434 2007
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP W:435 , SER W:460 , HOH W:519 , ARG X:4 , LYS X:7 , GLN X:11 , LYS X:41 , VAL X:118 , HIS X:119 , HOH X:952
BINDING SITE FOR RESIDUE CIT X 900
[
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
1: VAR_014726 (P169L, chain W/Y, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014726
P
170
L
RINI_HUMAN
Polymorphism
17585
W/Y
P
169
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: RNASE_PANCREATIC (X:40-46,Z:40-46)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RNASE_PANCREATIC
PS00127
Pancreatic ribonuclease family signature.
RNAS1_HUMAN
68-74
2
X:40-46
Z:40-46
[
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Exons
(10, 20)
Info
All Exons
Exon 1.6d (W:1-33 | Y:1-33)
Exon 1.7e (W:33-90 | Y:33-90)
Exon 1.7g (W:90-147 | Y:90-147)
Exon 1.7p (W:147-204 | Y:147-204)
Exon 1.8b (W:204-261 | Y:204-261)
Exon 1.9a (W:261-318 | Y:261-318)
Exon 1.10 (W:318-375 | Y:318-375)
Exon 1.11b (W:375-432 | Y:375-432)
Exon 1.11j (W:432-460 | Y:432-460)
Exon 2.3a (X:2-127 | Z:2-127)
View:
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Label:
All Exon Boundaries
01: Boundary 1.4c/1.6d
02: Boundary 1.6d/1.7e
03: Boundary 1.7e/1.7g
04: Boundary 1.7g/1.7p
05: Boundary 1.7p/1.8b
06: Boundary 1.8b/1.9a
07: Boundary 1.9a/1.10
08: Boundary 1.10/1.11b
09: Boundary 1.11b/1.11j
10: Boundary 1.11j/-
11: Boundary 2.2c/2.3a
12: Boundary 2.3a/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2b
ENST00000397615
2b
ENSE00002189970
chr11:
506800-506609
192
RINI_HUMAN
-
0
0
-
-
1.4c
ENST00000397615
4c
ENSE00001369908
chr11:
504996-504824
173
RINI_HUMAN
-
0
0
-
-
1.6d
ENST00000397615
6d
ENSE00002173795
chr11:
502249-502062
188
RINI_HUMAN
1-34
34
2
W:1-33
Y:1-33
33
33
1.7e
ENST00000397615
7e
ENSE00000656253
chr11:
500654-500484
171
RINI_HUMAN
34-91
58
2
W:33-90
Y:33-90
58
58
1.7g
ENST00000397615
7g
ENSE00000656254
chr11:
499999-499829
171
RINI_HUMAN
91-148
58
2
W:90-147
Y:90-147
58
58
1.7p
ENST00000397615
7p
ENSE00000656255
chr11:
499185-499015
171
RINI_HUMAN
148-205
58
2
W:147-204
Y:147-204
58
58
1.8b
ENST00000397615
8b
ENSE00000656256
chr11:
498933-498763
171
RINI_HUMAN
205-262
58
2
W:204-261
Y:204-261
58
58
1.9a
ENST00000397615
9a
ENSE00000656258
chr11:
498627-498457
171
RINI_HUMAN
262-319
58
2
W:261-318
Y:261-318
58
58
1.10
ENST00000397615
10
ENSE00000656259
chr11:
498141-497971
171
RINI_HUMAN
319-376
58
2
W:318-375
Y:318-375
58
58
1.11b
ENST00000397615
11b
ENSE00000656260
chr11:
495053-494883
171
RINI_HUMAN
376-433
58
2
W:375-432
Y:375-432
58
58
1.11j
ENST00000397615
11j
ENSE00001827718
chr11:
494778-494515
264
RINI_HUMAN
433-461
29
2
W:432-460
Y:432-460
29
29
2.1c
ENST00000397970
1c
ENSE00001915577
chr14:
21271007-21270956
52
RNAS1_HUMAN
-
0
0
-
-
2.2c
ENST00000397970
2c
ENSE00001530999
chr14:
21270478-21270408
71
RNAS1_HUMAN
-
0
0
-
-
2.3a
ENST00000397970
3a
ENSE00001837426
chr14:
21270252-21269542
711
RNAS1_HUMAN
1-165
165
2
X:2-127
Z:2-127
126
126
[
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SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2q4gx_ (X:)
1b: SCOP_d2q4gz_ (Z:)
2a: SCOP_d2q4gw_ (W:)
2b: SCOP_d2q4gy_ (Y:)
View:
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
RNase A-like
(356)
Superfamily
:
RNase A-like
(356)
Family
:
Ribonuclease A-like
(347)
Protein domain
:
Ribonuclease A (also ribonuclease B, S)
(173)
Human (Homo sapiens), des1-7 [TaxId: 9606]
(8)
1a
d2q4gx_
X:
1b
d2q4gz_
Z:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
(112)
Superfamily
:
RNI-like
(17)
Family
:
28-residue LRR
(9)
Protein domain
:
automated matches
(4)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d2q4gw_
W:
2b
d2q4gy_
Y:
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2q4gW00 (W:1-460)
1b: CATH_2q4gY00 (Y:1-460)
2a: CATH_2q4gX00 (X:2-127)
2b: CATH_2q4gZ00 (Z:2-127)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Horseshoe
(92)
Topology
:
Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
(73)
Homologous Superfamily
:
Ribonuclease Inhibitor
(73)
Human (Homo sapiens)
(26)
1a
2q4gW00
W:1-460
1b
2q4gY00
Y:1-460
Architecture
:
Roll
(3276)
Topology
:
P-30 Protein
(299)
Homologous Superfamily
:
P-30 Protein
(299)
Human (Homo sapiens)
(46)
2a
2q4gX00
X:2-127
2b
2q4gZ00
Z:2-127
[
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Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_LRR_6_2q4gY01 (Y:396-419)
1b: PFAM_LRR_6_2q4gY02 (Y:396-419)
1c: PFAM_LRR_6_2q4gY03 (Y:396-419)
1d: PFAM_LRR_6_2q4gY04 (Y:396-419)
2a: PFAM_RnaseA_2q4gZ01 (Z:2-121)
2b: PFAM_RnaseA_2q4gZ02 (Z:2-121)
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Clans
(
)
(
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Families
(
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(
)
Organisms
(
)
(
)
Clan
:
LRR
(77)
Family
:
LRR_6
(24)
Homo sapiens (Human)
(4)
1a
LRR_6-2q4gY01
Y:396-419
1b
LRR_6-2q4gY02
Y:396-419
1c
LRR_6-2q4gY03
Y:396-419
1d
LRR_6-2q4gY04
Y:396-419
Clan
:
no clan defined [family: RnaseA]
(125)
Family
:
RnaseA
(125)
Homo sapiens (Human)
(15)
2a
RnaseA-2q4gZ01
Z:2-121
2b
RnaseA-2q4gZ02
Z:2-121
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