Structural Comparison of Similar Proteins with Insertion and Deletion
Structure Superposition of 1GSAA and 1GLVA
Load a new SCINDEL pair




Legends Orange: Protein 1
Green: Protein 2
Blue: Indel in Protein 1
Red: Indel in Protein 2
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# # #

Global sequence alignment with NEEDLE1

 Global structural alignment with FAST2
(Indel regions in bold)
 
SID = 95.6%

1GSAA     1 MIKLGIVMDPIANINIKKDSSFAMLLEAQRRGYELHYMEMGDLYLINGEA    50
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA     1 MIKLGIVMDPIANINIKKDSSFAMLLEAQRRGYELHYMEMGDLYLINGEA    50

1GSAA    51 RAHTRTLNVKQNYEEWFSFVGEQDLPLADLDVILMRKDPPFDTEFIYATY   100
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA    51 RAHTRTLNVKQNYEEWFSFVGEQDLPLADLDVILMRKDPPFDTEFIYATY   100

1GSAA   101 ILERAEEKGTLIVNKPQSLRDCNEKLFTAWFSDLTPETLVTRNKAQLKAF   150
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA   101 ILERAEEKGTLIVNKPQSLRDCNEKLFTAWFSDLTPETLVTRNKAQLKAF   150

1GSAA   151 WEKHSDIILKPLDGMGGASIFRVKEGDPNLGVIAETLTEHGTRYCMAQNY   200
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA   151 WEKHSDIILKPLDgmggASIFRVKEGDPNLGVIAETLTEHGTRYCMAQNY   200

1GSAA   201 LPAIKDGDKRVLVVDGEPVPYCLARIPQGGETRGNLAAGGRGEPRPLTES   250
            |||||||||||||||||||||||||             ||.|||||||||
1GLVA   201 LPAIKDGDKRVLVVDGEPVPYCLAR-------------GGGGEPRPLTES   250

1GSAA   251 DWKIARQIGPTLKEKGLIFVGLDIIGDRLTEINVTSPTCIREIEAEFPVS   300
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA   251 DWKIARQIGPTLKEKGLIFVGLDIIGDRLTEINVTSPTCIREIEAEFPVS   300

1GSAA   301 ITGMLMDAIEARLQqq   314
            ||||||||||||||||
1GLVA   301 ITGMLMDAIEARLQQQ   316


RMSD = 0.366 angstroms. SN = 3.579e+01 

1GSAA     1 MIKLGIVMDPIANINIKKDSSFAMLLEAQRRGYELHYMEMGDLYLINGEA    50
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA     1 MIKLGIVMDPIANINIKKDSSFAMLLEAQRRGYELHYMEMGDLYLINGEA    50

1GSAA    51 RAHTRTLNVKQNYEEWFSFVGEQDLPLADLDVILMRKDPPFDTEFIYATY   100
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA    51 RAHTRTLNVKQNYEEWFSFVGEQDLPLADLDVILMRKDPPFDTEFIYATY   100

1GSAA   101 ILERAEEKGTLIVNKPQSLRDCNEKLFTAWFSDLTPETLVTRNKAQLKAF   150
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA   101 ILERAEEKGTLIVNKPQSLRDCNEKLFTAWFSDLTPETLVTRNKAQLKAF   150

1GSAA   151 WEKHSDIILKPLDGMGGA-SIFRVKEGDPNLGVIAETLTEHGTRYCMAQN   199
            |||||||||||||      |||||||||||||||||||||||||||||||
1GLVA   151 WEKHSDIILKPLD-----ASIFRVKEGDPNLGVIAETLTEHGTRYCMAQN   199

1GSAA   200 YLPAIKDGDKRVLVVDGEPVPYCLARIPQGGETRGNLAAGG-RGEPRPLT   248
            |||||||||||||||||||||||||||               ||||||||
1GLVA   200 YLPAIKDGDKRVLVVDGEPVPYCLARG--------------GGGEPRPLT   248

1GSAA   249 ESDWKIARQIGPTLKEKGLIFVGLDIIGDRLTEINVTSPTCIREIEAEFP   298
            ||||||||||||||||||||||||||||||||||||||||||||||||||
1GLVA   249 ESDWKIARQIGPTLKEKGLIFVGLDIIGDRLTEINVTSPTCIREIEAEFP   298

1GSAA   299 VSITGMLMDAIEARLQ---   314
            |||||||||||||||    
1GLVA   299 VSITGMLMDAIEARL-QQQ   316


Legend:
Bar - aligned alpha carbons within 3 A
Dot - aligned alpha carbons within 3 to 5 A
Space - aligned alpha carbons that are apart by more than 5 A






1http://emboss.sourceforge.net/

2Zhu J and Weng Z, FAST: A Novel Protein Structure Alignment Algorithm, Proteins: Structure, Function and Bioinformatics (2005) Vol 14, 417-423.

3Shindyalov IN, Bourne PE (1998) Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Engineering 11(9) 739-747.





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