Logo
Information on SUBCLASS 2.5.3
Subclass Accession number: 5405
Subclass: 2.5.3 PSSM
Type: HE alpha-beta
DB: ArchDB95

Image coordinates: Rasmol PDB Jmol PDB
Consensus coordinates: Rasmol PDB Jmol PDB
Number of loops: 24

Average sequence ID (%) : 17.8 +/- 17.9
Average RMSD (Å) : 0.600 +/- 0.211

Consensus geometry
d (Å): 5 delta (°): 90-135 theta (°): 135-180 rho (°): 90-135
Consensus Sequence: XXGhph
(φψ)-conformation: aagpbb
Pattern: xx[AFGILMY][enqrstwy][adegknqs]x[DGN][afgilmvy][adegnqrt][acfglptv][afiltv]xx
Conservation:-0.631-0.5180.304-0.388-0.042-0.3853.175-0.017-0.328-0.006-0.017-0.788-0.359
Loops included in this Subclass
LoopPDBChainStartEndSequenceSec StructRamachandran
1b8o_A_2221b8o   A226238IVARHCGLRVFGFHHHHHTT-EEEEEaaaaaavxxbbbb
1bup_A_1521bup   A160172DAGTIAGLNVLRIHHHHHTT-EEEEEaaaaaavxbxabb
1ccw_A_181ccw   A2537HAFTNAGFNVVNIHHHHHTT-EEEEEaaaaaagxxxbxa
1e42_A_8611e42   A866878SKLQNNNVYTIAKHHHHTTT-EEEEEaaaaaalbxxabb
1f9z_A_821f9z   A8799EKIRQNGGNVTREHHHHHTT-EEEEEaaaaaagpbbabp
1g2o_A_2101g2o   A214226IAARAAGAEVLGVHHHHHTT-EEEEEaaaaaavbxbbbb
1g60_A_761g60   A8496QYLVSKGMIFQNWHHHHHTT-EEEEEaaaaaavxbxabb
1j2r_A_1451j2r   A151163RNAWELGFNLVIAHHHHHTT-EEEEEaaaaaavxxbbxx
1kll_A_821kll   A90102AELVDAGYEGHLKHHHHHTT-EEEEEaaaaaagxxxabx
1kpg_A_2121kpg   A213225ECASANGFTVTRVHHHHTTT-EEEEEaaaaaavbbxabb
1l1e_A_2081l1e   A213225EYAEKVGFRVTAVHHHHTTT-EEEEEaaaaaagxbxabb
1lhp_A_211lhp   A2638FPLQVLGFEVDAVHHHHHTT-EEEEEaaaaaavxxbbbb
1m1n_A_3641m1n   A365377GAYEDLGMEVVGTHHHHTTT-EEEEEaaaaaavxbxabb
1mkz_A_281mkz   A3547DSAQEAGHHVVDKHHHHHTT-EEEEEaaaaaagxbxabb
1nf9_A_1551nf9   A161173VDAYSNDIQPFLVHHHHHTT-EEEEEaaaaaavbxxbxx
1nh8_A_1601nh8   A160172RTLSQHDLVAFGEHHHHHTTEEEEEEaaaaaalbbxbex
1nox_*_1251nox   -145157LLLEAYGLGSVPMHHHHHTT-EEEEEaaaaaavbxbbxb
1o98_A_4111o98   A430442DAILAKGGIAIITHHHHHTT-EEEEEaaaaaavxbbbxb
1qe5_A_2251qe5   A229241IAARHCGLEVLGVHHHHHTT-EEEEEaaaaaavxxbbbb
1qo0_A_1511qo0   A162174HLYRQHGGTVLEEHHHHTTT-EEEEEaaaaaavxbxaeb
1qzz_A_3191qzz   A324336DLAGSAGLALASEHHHHTTTEEEEEEaaaaaavbbxabb
1ufk_A_2241ufk   A229241EAMAGAGFRPLEEHHHHHTT-EEEEEaaaaaavxbwabb
1vjg_A_291vjg   A3648VNANKKGYDVTYYHHHHHTTEEEEEEaaaaaavxbxxxb
6mht_A_236mht   A2638LALESCGAECVYSHHHHTTT-EEEEEaaaaaavxbxabb
PDB ligands within a cut-off distance of 6 Å in this subclass
LoopPDBChainLigandsResidue
1b8o_A_2221b8o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL T - 242
1b8o_A_2221b8o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL N - 243
1b8o_A_2221b8o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL K - 244
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN V - 18
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN G - 19
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN N - 20
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN I - 22
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN L - 23
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN F - 27
1ccw_A_181ccw   A     CNCCO-CYANOCOBALAMIN L - 40
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED L - 868
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED Q - 869
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED N - 870
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED N - 871
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED N - 872
1e42_A_8611e42   A     MO5MAGNESIUM ION, 5 WATERS COORDINATED Y - 874
1e42_A_8611e42   A     DTT2,3-DIHYDROXY-1,4-DITHIOBUTANE I - 876
1e42_A_8611e42   A     DTT2,3-DIHYDROXY-1,4-DITHIOBUTANE A - 877
1e42_A_8611e42   A     DTT2,3-DIHYDROXY-1,4-DITHIOBUTANE R - 879
1g2o_A_2101g2o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL T - 230
1g2o_A_2101g2o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL N - 231
1g2o_A_2101g2o   A     IMH1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL L - 232
1j2r_A_1451j2r   A     MPD2-METHYL-2,4-PENTANEDIOL G - 145
1j2r_A_1451j2r   A     MPD2-METHYL-2,4-PENTANEDIOL W - 154
1kll_A_821kll   A     MSESELENOMETHIONINE K - 88
1kll_A_821kll   A     MSESELENOMETHIONINE L - 92
1kpg_A_2121kpg   A     MSESELENOMETHIONINE Q - 212
1kpg_A_2121kpg   A     MSESELENOMETHIONINE E - 213
1kpg_A_2121kpg   A     MSESELENOMETHIONINE C - 214
1kpg_A_2121kpg   A     MSESELENOMETHIONINE A - 215
1kpg_A_2121kpg   A     MSESELENOMETHIONINE F - 220
1mkz_A_281mkz   A     MSESELENOMETHIONINE L - 33
1nf9_A_1551nf9   A     BOGB-OCTYLGLUCOSIDE L - 157
1nh8_A_1601nh8   A     AMPADENOSINE MONOPHOSPHATE R - 160
1nh8_A_1601nh8   A     AMPADENOSINE MONOPHOSPHATE T - 161
1nh8_A_1601nh8   A     AMPADENOSINE MONOPHOSPHATE L - 162
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE Y - 137
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE L - 140
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE L - 144
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE V - 155
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE P - 156
1nox_*_1251nox   *     FMNFLAVIN MONONUCLEOTIDE M - 157
1qo0_A_1511qo0   A     BMDBUTYRAMIDE Y - 152
1qo0_A_1511qo0   A     BMDBUTYRAMIDE P - 153
6mht_A_236mht   A     SAMS-ADENOSYLMETHIONINE G - 23
6mht_A_236mht   A     SAMS-ADENOSYLMETHIONINE F - 24
6mht_A_236mht   A     SAMS-ADENOSYLMETHIONINE N - 39
PDB Site Annotated loops in this subclass
LoopPDBChainSiteResidue
1e42_A_8611e42   A AC1MO5 BINDING SITE FOR CHAIN A SYMMETRY RELATED SUBUNITS CONTRIBUTE TO THE BINDING SITEQ - 869
1e42_A_8611e42   A AC1MO5 BINDING SITE FOR CHAIN A SYMMETRY RELATED SUBUNITS CONTRIBUTE TO THE BINDING SITEN - 870
1e42_A_8611e42   A AC1MO5 BINDING SITE FOR CHAIN A SYMMETRY RELATED SUBUNITS CONTRIBUTE TO THE BINDING SITEN - 872
1e42_A_8611e42   A AC1MO5 BINDING SITE FOR CHAIN A SYMMETRY RELATED SUBUNITS CONTRIBUTE TO THE BINDING SITEY - 874
1qo0_A_1511qo0   A LGABUTYRAMIDE BINDING SITEY - 152

Clusters included in this Subclass
CLUSTER: HE.3.49
CLUSTER: HE.3.63
CLUSTER: HE.4.36