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Numbering & Regions

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Region Sequence Details
Regions Definition:
Region Sequence Fragment Residues Length
LFR1
DVVMTQSPLSLPVSLGDQASISC
1 - 23 23
CDR-L1
RSSQSLVHSNGNNYLH
24 - 39 16
LFR2
WYLQKSGQAPKLLIY
40 - 54 15
CDR-L2
KVSNRFS
55 - 61 7
LFR3
GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
CDR-L3
SQSTHVPLT
94 - 102 9
LFR4
FGGGTKLEIKRA
103 - 114 12
Tail
DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK
DSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
115 - 219 105
219
Region Sequence Fragment Residues Length
LFR1
DVVMTQSPLSLPVSLGDQASISC
1 - 23 23
CDR-L1
RSSQSLVHSNGNNYLH
24 - 39 16
LFR2
WYLQKSGQAPKLLIY
40 - 54 15
CDR-L2
KVSNRFS
55 - 61 7
LFR3
GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
CDR-L3
SQSTHVPLT
94 - 102 9
LFR4
FGGGTKLEIKRA
103 - 114 12
Tail
DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK
DSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
115 - 219 105
219
Region Sequence Fragment Residues Length
LFR1
DVVMTQSPLSLPVSLGDQASISC
1 - 23 23
CDR-L1
RSSQSLVHSNGNNYLH
24 - 39 16
LFR2
WYLQKSGQAPKLLIY
40 - 54 15
CDR-L2
KVSNRFS
55 - 61 7
LFR3
GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
CDR-L3
SQSTHVPLT
94 - 102 9
LFR4
FGGGTKLEIKRA
103 - 114 12
Tail
DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK
DSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
115 - 219 105
219
Region Sequence Fragment Residues Length
LFR1
DVVMTQSPLSLPVSLGDQASISCRSSQSL
1 - 29 29
CDR-L1
VHSNGNNYLHWY
30 - 41 12
LFR2
LQKSGQAPK
42 - 50 9
CDR-L2
LLIYKVSNRF
51 - 60 10
LFR3
SGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
61 - 93 33
CDR-L3
SQSTHVPL
94 - 101 8
LFR4
TFGGGTKLEIKRA
102 - 114 13
Tail
DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK
DSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
115 - 219 105
219
Region Sequence Fragment Residues Length
LFR1
DVVMTQSPLSLPVSLGDQASISCRSS
1 - 26 26
CDR-L1
QSLVHSNGNNY
27 - 37 11
LFR2
LHWYLQKSGQAPKLLIY
38 - 54 17
CDR-L2
KV
55 - 56 2
LFR3
SNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
57 - 93 37
CDR-L3
SQSTHVPLT
94 - 102 9
LFR4
FGGGTKLEIKRA
103 - 114 12
Tail
DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK
DSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
115 - 219 105
219
Region Definition Sequence Fragment Residues Length
LFR1 Chothia
DVVMTQSPLSLPVSLGDQASISC------
1 - 23 23
AbM
DVVMTQSPLSLPVSLGDQASISC------
1 - 23 23
Kabat
DVVMTQSPLSLPVSLGDQASISC------
1 - 23 23
Contact
DVVMTQSPLSLPVSLGDQASISCRSSQSL
1 - 29 29
IMGT
DVVMTQSPLSLPVSLGDQASISCRSS---
1 - 26 26
CDR-L1 Chothia
RSSQSLVHSNGNNYLH--
24 - 39 16
AbM
RSSQSLVHSNGNNYLH--
24 - 39 16
Kabat
RSSQSLVHSNGNNYLH--
24 - 39 16
Contact
------VHSNGNNYLHWY
30 - 41 12
IMGT
---QSLVHSNGNNY----
27 - 37 11
LFR2 Chothia
--WYLQKSGQAPKLLIY
40 - 54 15
AbM
--WYLQKSGQAPKLLIY
40 - 54 15
Kabat
--WYLQKSGQAPKLLIY
40 - 54 15
Contact
----LQKSGQAPK----
42 - 50 9
IMGT
LHWYLQKSGQAPKLLIY
38 - 54 17
CDR-L2 Chothia
----KVSNRFS
55 - 61 7
AbM
----KVSNRFS
55 - 61 7
Kabat
----KVSNRFS
55 - 61 7
Contact
LLIYKVSNRF-
51 - 60 10
IMGT
----KV-----
55 - 56 2
LFR3 Chothia
-----GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
AbM
-----GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
Kabat
-----GVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
62 - 93 32
Contact
----SGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
61 - 93 33
IMGT
SNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFC
57 - 93 37
CDR-L3 Chothia
SQSTHVPLT
94 - 102 9
AbM
SQSTHVPLT
94 - 102 9
Kabat
SQSTHVPLT
94 - 102 9
Contact
SQSTHVPL-
94 - 101 8
IMGT
SQSTHVPLT
94 - 102 9
LFR4 Chothia
-FGGGTKLEIKRA
103 - 114 12
AbM
-FGGGTKLEIKRA
103 - 114 12
Kabat
-FGGGTKLEIKRA
103 - 114 12
Contact
TFGGGTKLEIKRA
102 - 114 13
IMGT
-FGGGTKLEIKRA
103 - 114 12
Humanness

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Accession & Annotations
Accession 1rmf_L
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 Light
Pairing 1rmf_H
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:
DVVMTQSPLSLPVSLGDQASISCRSSQSLVHSNGNNYLHWYLQKSGQAPKLLIYKVSNRF
SGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQSTHVPLTFGGGTKLEIKRADAAPTV
SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSM
SSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC

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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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