I-sites 7

[Glycine alpha C-cap, Type 2]

Given below is the representative amino acid fragments, "paradigm", for each I-sites cluster of this motif:

Paradigms are given by their PDB code, (chain number,) and the PDB residue number of the first position in the fragment.
The PDB style files of the fragments contain the neighbouring two residues for each terminal.
Backbone structures are obtained using ProteinViewer, where N-terminal is colored red and C-terminal blue.
Click on thumbnail for larger images.
Rough characterization of the DSSP code, the PB label, and the 5-tile code is given below.
See also reference [3] for DSSP and [2] for PBs.

Cluster ID (paradigm)	Backbone structure	Amino acid sequence DSSP code sequence 5-tile code sequence PB sequence
8128 (1531 122)		NFIKTIQK HHHHHHHH AAAAAAAA MMMMMMMM
8257 (1grd A 18)		NYAMKEAA HHHHHHHH AAAAAAAA LMMMMMMM
9480 (1ecp A 134)		VRNAVDAAK HHHHHHHHH AAAAAAAAA MMMMMMMMM
10523 (1dpg A 51)		DDEFKQLVRD HHHHHHHHHH QAAAAAAAAA MLMMMMMMMM
11196 (2liv 279)		TTYAALQSLQA HHHHHHHHHHH AAAAAAAAAAA MMMMMMMMMMM
11648 (1pox A 14)		GAAVIKVLEAW HHHHHHHHHHT AAAAAAAAAAB LMMMMMMMMNO
12029 (1pda 14)		PLALWQAHWVKD HHHHHHHHHHHH QAAAAAAAAAAA KLMMMMMMMMMM
13022 (2gst A 72)		SNAIMRYLARKHH HHHHHHHHHHHTT QAAAAAAAAAA3R KLMMMMMMMMNOP
15007 (1bpl A 81)		GELQSAIKSLHSRDI HHHHHHHHHHHHTT_ AAAAAAAAAAAABR0 LMMMMMMMMMMNOPA
15079 (1obp A 126)		DEDLEKFWKLTEDKG HHHHHHHHHHHHHTT QAAAAAAAAAAAABR KLMMMMMMMMMMNOP
15577 (1bpl A 82)		ELQSAIKSLHSRDIN HHHHHHHHHHHTT_E AAAAAAAAAAABR00 MMMMMMMMMMNOPAC
15610 (1obp A 127)		EDLEKFWKLTEDKGI HHHHHHHHHHHHTT_ AAAAAAAAAAAABR0 LMMMMMMMMMMNOPA
3060 (1pbg A 107)		HVE T_E R00 PAC
5050 (1bia 46)		WGVDV TT__ BR000 OPACD
5081 (3pte 290)		SCGIS TTS_E QB300 KLPAC
10912 (1bnc B 19)		RACKELGIKT HHHHHHT_EE AAAAABR000 MMMMNOPACD
11051 (2dri 29)		KLGYNLVVLDS HHT_EEEEEE_ ABR0000000R NOPACDDDDEK
11506 (1bnc B 20)		ACKELGIKTVA HHHHHT_EEEE AAAABR00000 MMMNOPACDDD
12016 (1bnc B 21)		CKELGIKTVAVH HHHHT_EEEEEE AAABR0000000 MMNOPACDDDDD
12908 (1bpl A 86)		AIKSLHSRDINV HHHHHHHTT_EE AAAAAAABR000 MMMMMMNOPACD
12910 (1blp A 87)		IKSLHSRDINVY HHHHHHTT_EEE AAAAAABR0000 MMMMMNOPACDD
13907 (1bpl A 86)		AIKSLHSRDINVY HHHHHHHTT_EEE AAAAAAABR0000 MMMMMMNOPACDD
15002 (1bnc B 16)		RILRACKELGIKTVA HHHHHHHHHT_EEEE AAAAAAAABR00000 MMMMMMMNOPACDDD
15025 (2dri 23)		AQKEADKLGYNLVVL HHHHHHHHT_EEEEE AAAAAAABR000000 MMMMMMNOPACDDDD
15448 (1bpl A 84)		QSAIKSLHSRDINVY HHHHHHHHHTT_EEE AAAAAAAAABR0000 MMMMMMMMNOPACDD
15905 (2end 71)		QIELIAECLKRGFNI HHHHHHHHHHTT___ AAAAAAAAAABR000 MMMMMMMMMNOPACF
5111 (1ses A 398)		QDGRV TTS_E QBRG0 KLPAC