Structure summary for 2YK1

Detailed entry information.

Key:

Heavy Chains
Light Chains
Bound Antigen Chains
Chothia CDRs
Other

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Structure Of Human Anti-Nicotine Fab Fragment In Complex With Nicotine

ItemInfo
PDB code: 2yk1
Organism: HOMO SAPIENS
Experimental method: X-RAY DIFFRACTION
In complex: True
Fvs present: 1
Binding affinity (KD): 7.4e-09 M
ΔG: -11.09 kcal/mol
Affinity method: Other
Source: Paper Link
Light chain type: Lambda
PDB has constant region: True

This PDB has 1 antibody variable fragment(s)

Fab Details:
ItemInfo
Heavy Chain H
Light Chain L
Heavy V subgroup IGHV4 *
Light V subgroup IGLV1 *
Bound-state Bound
Species HOMO SAPIENS
ScFv? False
Constant domains present? True
Antigen Details:
ItemInfo
On chain H
Type Hapten
Name (S)-3-(1-METHYLPYRROLIDIN-2-YL)PYRIDINE

Sequence:
Chain typeChain idFasta sequenceChothia annotated sequence ( framework / CDRs )
VH H Download
H1 H2 H3 H4 H5 H6 H7 H8 H9 H10
QMQLLESGPG
H11 H12 H13 H14 H15 H16 H17 H18 H19 H20
LVKPSETLSL
H21 H22 H23 H24 H25 H26 H27 H32 H33 H34
TCTVSGGSIW
H35 H36 H37 H38 H39 H40 H41 H42 H43 H44
GWIRQPPGKG
H45 H46 H47 H48 H49 H50 H51 H52 H53 H54
LEWIGSIYSS
H55 H56 H57 H58 H59 H60 H61 H62 H63 H64
GSTYYNPSLK
H65 H66 H67 H68 H69 H70 H71 H72 H73 H74
SRVTTSVDTS
H75 H76 H77 H78 H79 H80 H81 H82 H82AH82B
KNQFSLRLSS
H82CH83 H84 H85 H86 H87 H88 H89 H90 H91
VTAADTAVYY
H92 H93 H94 H95 H96 H97 H98 H99 H100 H100A
CVAWFGDLLS
H100BH100CH100DH100EH101 H102 H103 H104 H105 H106
LKGVELWGQG
H107 H108 H109 H110 H111 H112 H113
TLVTVSS
VL L Download
L1 L2 L3 L4 L5 L6 L7 L8 L9 L11
QSELTQPPSA
L12 L13 L14 L15 L16 L17 L18 L19 L20 L21
SGTPGQRVTI
L22 L23 L24 L25 L26 L27 L28 L29 L30 L30A
SCSGSSSNIG
L30BL31 L32 L33 L34 L35 L36 L37 L38 L39
SNYVYWYQQL
L40 L41 L42 L43 L44 L45 L46 L47 L48 L49
PGTAPKLLIY
L50 L51 L52 L53 L54 L55 L56 L57 L58 L59
RNNQRPSGVP
L60 L61 L62 L63 L64 L65 L66 L67 L68 L69
DRFSGSKSGT
L70 L71 L72 L73 L74 L75 L76 L77 L78 L79
SASLAISGLR
L80 L81 L82 L83 L84 L85 L86 L87 L88 L89
SEDEADYYCA
L90 L91 L92 L93 L94 L95 L95AL95BL96 L97
AWDDSLSAWV
L98 L99 L100 L101 L102 L103 L104 L105 L106 L106A
FGGGTQLDIL
L107 L108 L109
GQP
Antigen typeOn chain idStructure
Hapten H

Antibody i-Patch annotation:
Fab heavy/lightchainLink to the Antibody i-Patch annotation (What is this?)
H/LGet AB i-Patch annotation
Chothia CDR information:
CDRSequence
CDRL1 SGSSSNIGSNYVY
CDRL2 RNNQRPS
CDRL3 AAWDDSLSAWV
CDRH1 GGS
CDRH2 YSSGS
CDRH3 WFGDLLSLKGVEL
VH-VL orientation:
(see plot)
AngleValue
HL -52.7°
HC1 68.3°
HC2 116.4°
LC1 120.3°
LC2 86.2°
dc 15.9 Å

Downloads and links.

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Full structureDownload
Chothia structureDownload
Summary fileDownload
Entry in the PDBSee the file on the PDB
Flag misannotation