PDB: 1lvm Compound: catalytic domain of the nuclear inclusion protein Classification: VIRUS/VIRAL PROTEIN Entry date in PDB: 2002-11-27 Resolution [Å]: 1.80 R-Factor: 0.171

CHAIN: A SWISS-PROT/TREMBL: P04517    KEYWORD: 3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    EC: 2.7.7.48 SCOP: b.47.1.3 All beta proteins    Trypsin-like serine proteases    Trypsin-like serine proteases    Viral proteases    TEV protease (nucleat inclusion protein A, NIA)    Tobacco etch virus, TEV GO:  viral capsid    ATP binding    ATP-dependent helicase activity    cysteine-type endopeptidase activity    cysteine-type peptidase activity    helicase activity    nucleic acid binding    RNA binding    RNA-directed RNA polymerase activity    proteolysis and peptidolysis    transcription    viral genome replication    CHAIN: B SWISS-PROT/TREMBL: P04517    KEYWORD: 3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    EC: 2.7.7.48 SCOP: b.47.1.3 All beta proteins    Trypsin-like serine proteases    Trypsin-like serine proteases    Viral proteases    TEV protease (nucleat inclusion protein A, NIA)    Tobacco etch virus, TEV GO:  viral capsid    ATP binding    ATP-dependent helicase activity    cysteine-type endopeptidase activity    cysteine-type peptidase activity    helicase activity    nucleic acid binding    RNA binding    RNA-directed RNA polymerase activity    proteolysis and peptidolysis    transcription    viral genome replication    CHAIN: C SWISS-PROT/TREMBL: P04517    KEYWORD: 3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    EC: 2.7.7.48 GO:  viral capsid    ATP binding    ATP-dependent helicase activity    cysteine-type endopeptidase activity    cysteine-type peptidase activity    helicase activity    nucleic acid binding    RNA binding    RNA-directed RNA polymerase activity    proteolysis and peptidolysis    transcription    viral genome replication    CHAIN: D SWISS-PROT/TREMBL: P04517    KEYWORD: 3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    EC: 2.7.7.48 GO:  viral capsid    ATP binding    ATP-dependent helicase activity    cysteine-type endopeptidase activity    cysteine-type peptidase activity    helicase activity    nucleic acid binding    RNA binding    RNA-directed RNA polymerase activity    proteolysis and peptidolysis    transcription    viral genome replication    CHAIN: E SWISS-PROT/TREMBL: P04517    KEYWORD: 3D-structure    ATP-binding    Coat protein    Covalent protein-RNA linkage    Helicase    Hydrolase    Polyprotein    RNA-directed RNA polymerase    Thiol protease    Transferase    EC: 2.7.7.48 SCOP: b.47.1.3 All beta proteins    Trypsin-like serine proteases    Trypsin-like serine proteases    Viral proteases    TEV protease (nucleat inclusion protein A, NIA)    Tobacco etch virus, TEV GO:  viral capsid    ATP binding    ATP-dependent helicase activity    cysteine-type endopeptidase activity    cysteine-type peptidase activity    helicase activity    nucleic acid binding    RNA binding    RNA-directed RNA polymerase activity    proteolysis and peptidolysis    transcription    viral genome replication

Image Source: PDB

Loops in ArchDB40 clusters

1lvm_B_208 - HA => SUBCLASS : 2.1.1
1lvm_B_132 - HA => SUBCLASS : 4.18.1
1lvm_B_154 - HA => SUBCLASS : 6.1.2
1lvm_B_177 - EH => SUBCLASS : 4.61.1

Loops in ArchDB95 clusters

1lvm_B_177 - EH => SUBCLASS : 4.82.1
1lvm_B_208 - HA => SUBCLASS : 2.1.1
1lvm_B_132 - HA => SUBCLASS : 4.31.1
1lvm_B_154 - HA => SUBCLASS : 6.2.2

Loops in ArchDB-EC clusters

1lvm_A_12 - HE => SUBCLASS : 0.1.55

Loops not clustered in ArchDB

1lvm_A_40 - AR
1lvm_A_62 - AR
1lvm_A_83 - AR
1lvm_B_198 - AR
1lvm_A_122 - AR
1lvm_B_139 - AR
1lvm_B_129 - AR
1lvm_B_123 - AR
1lvm_A_129 - AR
1lvm_B_83 - AR
1lvm_A_198 - AR
1lvm_B_62 - AR
1lvm_A_139 - AR
1lvm_B_40 - AR
1lvm_A_177 - EH
1lvm_A_108 - HA
1lvm_A_163 - HA
1lvm_A_73 - HA
1lvm_A_132 - HA
1lvm_A_154 - HA
1lvm_A_54 - HA
1lvm_A_28 - HA
1lvm_B_18 - HA
1lvm_B_28 - HA
1lvm_B_53 - HA
1lvm_B_73 - HA
1lvm_B_108 - HA
1lvm_B_163 - HA
1lvm_A_208 - HA
1lvm_A_18 - HA
1lvm_B_12 - HE
1lvm_A_186 - HE
1lvm_B_186 - HE

1lvb A - percentage of sequence identity: 99
1lvb B - percentage of sequence identity: 99
1lvm A - percentage of sequence identity: 100
1lvm B - percentage of sequence identity: 100
1q31 A - percentage of sequence identity: 99
1q31 B - percentage of sequence identity: 99