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Numbering & Regions

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Region Sequence Details
Regions Definition:
Region Sequence Fragment Residues Length
HFR1
QVQLQQSGPELVRPGVSVKISCKGS
1 - 25 25
CDR-H1
GYTFIDY
26 - 32 7
HFR2
AIHWVKESHAKSLEWIGVI
33 - 51 19
CDR-H2
SAYSGD
52 - 57 6
HFR3
TNYNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYCAR
58 - 98 41
CDR-H3
GGWLLLSFDY
99 - 108 10
HFR4
WGQGTTLTVSS
109 - 119 11
Tail
AKTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSD
LYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI
120 - 216 97
216
Region Sequence Fragment Residues Length
HFR1
QVQLQQSGPELVRPGVSVKISCKGS
1 - 25 25
CDR-H1
GYTFIDYAIH
26 - 35 10
HFR2
WVKESHAKSLEWIG
36 - 49 14
CDR-H2
VISAYSGDTN
50 - 59 10
HFR3
YNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYCAR
60 - 98 39
CDR-H3
GGWLLLSFDY
99 - 108 10
HFR4
WGQGTTLTVSS
109 - 119 11
Tail
AKTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSD
LYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI
120 - 216 97
216
Region Sequence Fragment Residues Length
HFR1
QVQLQQSGPELVRPGVSVKISCKGSGYTFI
1 - 30 30
CDR-H1
DYAIH
31 - 35 5
HFR2
WVKESHAKSLEWIG
36 - 49 14
CDR-H2
VISAYSGDTNYNQKFKG
50 - 66 17
HFR3
KATMTVDKSSNTAYLELARLTSEDSAIYYCAR
67 - 98 32
CDR-H3
GGWLLLSFDY
99 - 108 10
HFR4
WGQGTTLTVSS
109 - 119 11
Tail
AKTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSD
LYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI
120 - 216 97
216
Region Sequence Fragment Residues Length
HFR1
QVQLQQSGPELVRPGVSVKISCKGSGYTF
1 - 29 29
CDR-H1
IDYAIH
30 - 35 6
HFR2
WVKESHAKSLE
36 - 46 11
CDR-H2
WIGVISAYSGDTN
47 - 59 13
HFR3
YNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYC
60 - 96 37
CDR-H3
ARGGWLLLSFD
97 - 107 11
HFR4
YWGQGTTLTVSS
108 - 119 12
Tail
AKTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSD
LYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI
120 - 216 97
216
Region Sequence Fragment Residues Length
HFR1
QVQLQQSGPELVRPGVSVKISCKGS
1 - 25 25
CDR-H1
GYTFIDYA
26 - 33 8
HFR2
IHWVKESHAKSLEWIGV
34 - 50 17
CDR-H2
ISAYSGDT
51 - 58 8
HFR3
NYNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYC
59 - 96 38
CDR-H3
ARGGWLLLSFDY
97 - 108 12
HFR4
WGQGTTLTVSS
109 - 119 11
Tail
AKTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSD
LYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI
120 - 216 97
216
Region Definition Sequence Fragment Residues Length
HFR1 Chothia
QVQLQQSGPELVRPGVSVKISCKGS-----
1 - 25 25
AbM
QVQLQQSGPELVRPGVSVKISCKGS-----
1 - 25 25
Kabat
QVQLQQSGPELVRPGVSVKISCKGSGYTFI
1 - 30 30
Contact
QVQLQQSGPELVRPGVSVKISCKGSGYTF-
1 - 29 29
IMGT
QVQLQQSGPELVRPGVSVKISCKGS-----
1 - 25 25
CDR-H1 Chothia
GYTFIDY---
26 - 32 7
AbM
GYTFIDYAIH
26 - 35 10
Kabat
-----DYAIH
31 - 35 5
Contact
----IDYAIH
30 - 35 6
IMGT
GYTFIDYA--
26 - 33 8
HFR2 Chothia
AIHWVKESHAKSLEWIGVI
33 - 51 19
AbM
---WVKESHAKSLEWIG--
36 - 49 14
Kabat
---WVKESHAKSLEWIG--
36 - 49 14
Contact
---WVKESHAKSLE-----
36 - 46 11
IMGT
-IHWVKESHAKSLEWIGV-
34 - 50 17
CDR-H2 Chothia
-----SAYSGD---------
52 - 57 6
AbM
---VISAYSGDTN-------
50 - 59 10
Kabat
---VISAYSGDTNYNQKFKG
50 - 66 17
Contact
WIGVISAYSGDTN-------
47 - 59 13
IMGT
----ISAYSGDT--------
51 - 58 8
HFR3 Chothia
TNYNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYCAR
58 - 98 41
AbM
--YNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYCAR
60 - 98 39
Kabat
---------KATMTVDKSSNTAYLELARLTSEDSAIYYCAR
67 - 98 32
Contact
--YNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYC--
60 - 96 37
IMGT
-NYNQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYC--
59 - 96 38
CDR-H3 Chothia
--GGWLLLSFDY
99 - 108 10
AbM
--GGWLLLSFDY
99 - 108 10
Kabat
--GGWLLLSFDY
99 - 108 10
Contact
ARGGWLLLSFD-
97 - 107 11
IMGT
ARGGWLLLSFDY
97 - 108 12
HFR4 Chothia
-WGQGTTLTVSS
109 - 119 11
AbM
-WGQGTTLTVSS
109 - 119 11
Kabat
-WGQGTTLTVSS
109 - 119 11
Contact
YWGQGTTLTVSS
108 - 119 12
IMGT
-WGQGTTLTVSS
109 - 119 11
Humanness

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Accession & Annotations
Accession 1rmf_H
Source PDB  1rmf  Submitted 16-DEC-1994  Updated 25-AUG-2009
Name
STRUCTURES OF A MONOCLONAL ANTI-ICAM-1 ANTIBODY R6.5 FRAGMENT AT 2.8 ANGSTROMS RESOLUTION
Organism
Mus musculus
Chain Type Heavy
Pairing 1rmf_L
Identical Protein Sequences None
References
JEDRZEJAS J., MIGLIETTA J., GRIFFIN A., LUO M.
'STRUCTURE OF A MONOCLONAL ANTI-ICAM-1 ANTIBODY R6.5 FAB FRAGMENT AT 2.8 A RESOLUTION.'
ACTA CRYSTALLOGR.,SECT.D V. 51 380 1995 ISSN 0907-4449
Sequences
Amino Acid Sequence:
QVQLQQSGPELVRPGVSVKISCKGSGYTFIDYAIHWVKESHAKSLEWIGVISAYSGDTNY
NQKFKGKATMTVDKSSNTAYLELARLTSEDSAIYYCARGGWLLLSFDYWGQGTTLTVSSA
KTTAPSVTPLAPVCGDTTGSSVTLGVLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDL
YTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI

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Germline Tools
Data Source:
Data Source V D J Exclude if warnings
NCBI Germline
V-BASE
Alignment settings:
Rank alignments by
Exclude identical hits
Search settings:
V-segment score threshold
D-segment score threshold
J-segment score threshold
Gaps:
Gap penalty

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abYmod homology modelling

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Chains
1rmf_H
All Heavy
All HFR
All CDR-H
HFR1
CDR-H1
HFR2
CDR-H2
HFR3
CDR-H3
HFR4
Other Heavy
1rmf_L
All Light
All LFR
All CDR-L
LFR1
CDR-L1
LFR2
CDR-L2
LFR3
CDR-L3
LFR4
Other Light
Colours
Labels
On
Off
Atoms
Main chain
All
Style
Wireframe
Ball and Stick
Spacefill
Cartoon
Backbone
Reset
Black
Reset
White

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