Structure summary for 3HI1

Detailed entry information.

Key:

Heavy Chains
Light Chains
Bound Antigen Chains
Chothia CDRs
Other

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Structure Of Hiv-1 Gp120 (Core With V3) In Complex With Cd4-Binding-Site Antibody F105

ItemInfo
PDB code: 3hi1
Organism: HOMO SAPIENS
Experimental method: X-RAY DIFFRACTION
In complex: True
Fvs present: 2
Binding affinity (KD): 1.12e-08 M
ΔG: -10.84 kcal/mol
Affinity method: SPR
Source: Paper Link
Light chain type: Kappa
PDB has constant region: True

This PDB has 2 antibody variable fragment(s)

Fab Details:
ItemInfo
Heavy Chain B
Light Chain A
Heavy V / J / C subgroups IGHV4 / IGHJ5 / IGHG1
Light V / J / C subgroups IGKV3 / IGKJ2 / IGKC
Bound-state Bound
Species HOMO SAPIENS
ScFv? False
Constant domains present? True
Antigen Details:
ItemInfo
Chain J
Type protein
Name glycoprotein 120
Species HUMAN IMMUNODEFICIENCY VIRUS TYPE 1

Sequence:
Chain typeChain idFasta sequenceChothia annotated sequence ( framework / CDRs )
VH B Download
H1 H2 H3 H4 H5 H6 H7 H8 H9 H10
QVQLQESGPG
H11 H12 H13 H14 H15 H16 H17 H18 H19 H20
LVKPSETLSL
H21 H22 H23 H24 H25 H26 H27 H28 H29 H30
TCTVSGGSIS
H31 H32 H33 H34 H35 H36 H37 H38 H39 H40
SHYWSWIRQS
H41 H42 H43 H44 H45 H46 H47 H48 H49 H50
PGKGLQWIGY
H51 H52 H53 H54 H55 H56 H57 H58 H59 H60
IYYSGSTNYS
H61 H62 H63 H64 H65 H66 H67 H68 H69 H70
PSLKSRVTIS
H71 H72 H73 H74 H75 H76 H77 H78 H79 H80
VETAKNQFSL
H81 H82 H82AH82BH82CH83 H84 H85 H86 H87
KLTSMTAADT
H88 H89 H90 H91 H92 H93 H94 H95 H96 H97
AVYYCARGPV
H98 H99 H100 H100AH100BH100CH100DH100EH100FH100G
PAVFYGDYRL
H101 H102 H103 H104 H105 H106 H107 H108 H109 H110
DPWGQGTLVT
H111 H112 H113
VSS
VL A Download
L1 L2 L3 L4 L5 L6 L7 L8 L9 L10
EIVLTQSPGT
L11 L12 L13 L14 L15 L16 L17 L18 L19 L20
LSLSAGERAT
L21 L22 L23 L24 L25 L26 L27 L28 L29 L30
LSCRASQSVS
L30AL31 L32 L33 L34 L35 L36 L37 L38 L39
SRYLAWYQQK
L40 L41 L42 L43 L44 L45 L46 L47 L48 L49
PGQAPRLLIY
L50 L51 L52 L53 L54 L55 L56 L57 L58 L59
GASSRATGIP
L60 L61 L62 L63 L64 L65 L66 L67 L68 L69
DRFSGSGSGT
L70 L71 L72 L73 L74 L75 L76 L77 L78 L79
DFTLTISRVE
L80 L81 L82 L83 L84 L85 L86 L87 L88 L89
PEDFAVYYCQ
L90 L91 L92 L93 L94 L95 L96 L97 L98 L99
QYDNSVCTFG
L100 L101 L102 L103 L104 L105 L106 L107 L108 L109
QGTKLEIKRT
L110
V
Antigen typeChain idFasta sequenceSequence (Clustal colouring)
protein J Download
T E N F N M W K N N M V E Q M H E D I I S L W D Q S L K P C
V K L T G G S V I T Q A C P K V S F E P I P I H Y C A P A G
F A I L K C N D K K F N G T G P C T N V S T V Q C T H G I R
P V V S T Q L L L N G S L A E E E I V I R S E N F T N N A K
T I I V Q L N E S V V I N C T R P N N N T R K S I N I G P G
R A L Y T T G E I I G D I R Q A H C N L S K T Q W E N T L E
Q I A I K L K E Q F G N N K T I I F N P S S G G D P E I V T
H S F N C G G E F F Y C N S T Q L F T W N D T R K L N N T G
R N I T L P C R I K Q I I N M W Q E V G K A M Y A P P I R G
Q I R C S S N I T G L L L T R D G G K D T N G T E I F R P G
G G D M R D N W R S E L Y K Y K V V K I E

Antibody i-Patch annotation:
Fab heavy/lightchainLink to the Antibody i-Patch annotation (What is this?)
B/AGet AB i-Patch annotation
Chothia CDR information:
CDRSequence
CDRL1 RASQSVSSRYLA
CDRL2 GASSRAT
CDRL3 QQYDNSVCT
CDRH1 GGSISSH
CDRH2 YYSGS
CDRH3 GPVPAVFYGDYRLDP
VH-VL orientation:
(see plot)
AngleValue
HL -57.2°
HC1 72.2°
HC2 118.9°
LC1 122.8°
LC2 84.6°
dc 16.1 Å
Fab Details:
ItemInfo
Heavy Chain H
Light Chain L
Heavy V / J / C subgroups IGHV4 / IGHJ5 / IGHG1
Light V / J / C subgroups IGKV3 / IGKJ2 / IGKC
Bound-state Bound
Species HOMO SAPIENS
ScFv? False
Constant domains present? True
Antigen Details:
ItemInfo
Chain G
Type protein
Name glycoprotein 120
Species HUMAN IMMUNODEFICIENCY VIRUS TYPE 1

Sequence:
Chain typeChain idFasta sequenceChothia annotated sequence ( framework / CDRs )
VH H Download
H1 H2 H3 H4 H5 H6 H7 H8 H9 H10
QVQLQESGPG
H11 H12 H13 H14 H15 H16 H17 H18 H19 H20
LVKPSETLSL
H21 H22 H23 H24 H25 H26 H27 H28 H29 H30
TCTVSGGSIS
H31 H32 H33 H34 H35 H36 H37 H38 H39 H40
SHYWSWIRQS
H41 H42 H43 H44 H45 H46 H47 H48 H49 H50
PGKGLQWIGY
H51 H52 H53 H54 H55 H56 H57 H58 H59 H60
IYYSGSTNYS
H61 H62 H63 H64 H65 H66 H67 H68 H69 H70
PSLKSRVTIS
H71 H72 H73 H74 H75 H76 H77 H78 H79 H80
VETAKNQFSL
H81 H82 H82AH82BH82CH83 H84 H85 H86 H87
KLTSMTAADT
H88 H89 H90 H91 H92 H93 H94 H95 H96 H97
AVYYCARGPV
H98 H99 H100 H100AH100BH100CH100DH100EH100FH100G
PAVFYGDYRL
H101 H102 H103 H104 H105 H106 H107 H108 H109 H110
DPWGQGTLVT
H111 H112 H113
VSS
VL L Download
L1 L2 L3 L4 L5 L6 L7 L8 L9 L10
EIVLTQSPGT
L11 L12 L13 L14 L15 L16 L17 L18 L19 L20
LSLSAGERAT
L21 L22 L23 L24 L25 L26 L27 L28 L29 L30
LSCRASQSVS
L30AL31 L32 L33 L34 L35 L36 L37 L38 L39
SRYLAWYQQK
L40 L41 L42 L43 L44 L45 L46 L47 L48 L49
PGQAPRLLIY
L50 L51 L52 L53 L54 L55 L56 L57 L58 L59
GASSRATGIP
L60 L61 L62 L63 L64 L65 L66 L67 L68 L69
DRFSGSGSGT
L70 L71 L72 L73 L74 L75 L76 L77 L78 L79
DFTLTISRVE
L80 L81 L82 L83 L84 L85 L86 L87 L88 L89
PEDFAVYYCQ
L90 L91 L92 L93 L94 L95 L96 L97 L98 L99
QYDNSVCTFG
L100 L101 L102 L103 L104 L105 L106 L107 L108 L109
QGTKLEIKRT
L110
V
Antigen typeChain idFasta sequenceSequence (Clustal colouring)
protein G Download
T E N F N M W K N N M V E Q M H E D I I S L W D Q S L K P C
V K L T G G S V I T Q A C P K V S F E P I P I H Y C A P A G
F A I L K C N D K K F N G T G P C T N V S T V Q C T H G I R
P V V S T Q L L L N G S L A E E E I V I R S E N F T N N A K
T I I V Q L N E S V V I N C T R P N N N T R K S I N I G P G
R A L Y T T G E I I G D I R Q A H C N L S K T Q W E N T L E
Q I A I K L K E Q F G N N K T I I F N P S S G G D P E I V T
H S F N C G G E F F Y C N S T Q L F T W N D T R K L N N T G
R N I T L P C R I K Q I I N M W Q E V G K A M Y A P P I R G
Q I R C S S N I T G L L L T R D G G K D T N G T E I F R P G
G G D M R D N W R S E L Y K Y K V V K I E

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 RASQSVSSRYLA
CDRL2 GASSRAT
CDRL3 QQYDNSVCT
CDRH1 GGSISSH
CDRH2 YYSGS
CDRH3 GPVPAVFYGDYRLDP
VH-VL orientation:
(see plot)
AngleValue
HL -56.9°
HC1 71.8°
HC2 118.2°
LC1 122.9°
LC2 84.7°
dc 16.2 Å

Downloads and links.

ItemDownload link
Full structureDownload
Chothia structureDownload
Summary fileDownload
Entry in the PDBSee the file on the PDB
Entry in IMGTSee the IMGT entry
Flag misannotation