Atom Nomenclature for M0E

The atom nomenclature in PDB data files was revised with the release of data in the PDB Format Version 3.0. These changes make the PDB atom names used by PDB compliant with existing IUPAC nomenclature for standard amino acid and nucleotides (Pure & Appl. Chem., 70, 117-142, 1998) with the exception of the well established convention for C-terminal atoms OXT and HXT. A small number of additional changes were introduced in Version 3 to make atom labeling more conventional. The following chemical diagrams and tables provide the correspondences between atom names used in Version 3 and Version 2 PDB formats.

Labeled Chemical Diagrams

Chemical diagram with format V3 atom labels (heavy atoms)
Chemical diagram with format V3 atom labels (all atoms)
Chemical diagram with format V2 atom labels (heavy atoms)
Chemical diagram with format V2 atom labels (all atoms)

Atom Name Correspondences for M0E

Atom Name (V3) Atom Name (V2)
ODF ODF
CDG CDG
CDH CDH
ODI ODI
ODJ ODJ
CDK CDK
OBF OBF
PBI PBI
OBB OBB
OAZ OAZ
OBG OBG
CAX CAX
OBE OBE
CAQ CAQ
CAW CAW
OBD OBD
NAU NAU
CAO CAO
OBA OBA
CAS CAS
CAP CAP
OBH OBH
CAV CAV
OBC OBC
NAT NAT
CAR CAR
O1 O1
C1 C1
C2 C2
C3 C3
O3 O3
N2 N2
CAG CAG
CAH CAH
OAN OAN
O5 O5
C5 C5
C6 C6
O6 O6
CBJ CBJ
OBS OBS
CBN CBN
CBO CBO
OBT OBT
CBM CBM
OBR OBR
CBL CBL
OBQ OBQ
CBK CBK
OBP OBP
C4 C4
O4 O4
CBU CBU
CBV CBV
CBW CBW
OCD OCD
NCC NCC
CCA CCA
CCB CCB
OCG OCG
OCF OCF
CBY CBY
CBZ CBZ
CBX CBX
OCE OCE
CCH CCH
OCP OCP
CCI CCI
OCN OCN
CCJ CCJ
OCO OCO
CCK CCK
OCR OCR
CCL CCL
CCM CCM
OCQ OCQ
NCS NCS
CCT CCT
CCU CCU
OCV OCV
CCW CCW
CCX CCX
CCY CCY
OCZ OCZ
C31 C31
C32 C32
C33 C33
C34 C34
C35 C35
C36 C36
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
HDG HDG
HODJ HODJ
HDK1 HDK1
HDK2 HDK2
HOBB HOBB
HAX HAX
HAQ HAQ
HAU1 HAU1
HAU2 HAU2
HOBA HOBA
HAS1 HAS1
HAS2 HAS2
HAS3 HAS3
HAP HAP
HAT1 HAT1
HAT2 HAT2
HAR HAR
H1 H1
H2 H2
H3 H3
HO3 HO3
HN2 HN2
HAH1 HAH1
HAH2 HAH2
HAH3 HAH3
H5 H5
H61 H61
H62 H62
HBJ HBJ
HBN HBN
HBO1 HBO1
HBO2 HBO2
HOBT HOBT
HBM HBM
HOBR HOBR
HBL HBL
HOBQ HOBQ
HBK HBK
HOBP HOBP
H4 H4
HBU HBU
HBV HBV
HBW HBW
HOCD HOCD
HNCC HNCC
HCB1 HCB1
HCB2 HCB2
HCB3 HCB3
HBY HBY
HBZ1 HBZ1
HBZ2 HBZ2
HBZ3 HBZ3
HBX HBX
HCH HCH
HCI HCI
HOCN HOCN
HCJ HCJ
HOCO HOCO
HCK HCK
HOCR HOCR
HCL HCL
HNCS HNCS
HCW HCW
HCX HCX
HOCZ HOCZ
H11 H11
H32 H32
H41 H41
H42 H42
H43 H43
H51 H51
H52 H52
H361 H361
H362 H362
H7 H7
H8 H8
H101 H101
H102 H102
H103 H103
H111 H111
H112 H112
H113 H113
H121 H121
H122 H122
H131 H131
H132 H132
H151 H151
H152 H152
H161 H161
H162 H162
H17 H17
H191 H191
H192 H192
H193 H193
H201 H201
H202 H202
H211 H211
H212 H212
H22 H22
H241 H241
H242 H242
H243 H243
H251 H251
H252 H252
H253 H253
H21 H21