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Information on SUBCLASS 5.4.1
Subclass Accession number: 5757
Subclass: 5.4.1 PSSM
Type: HE alpha-beta
DB: ArchDB95

Image coordinates: Rasmol PDB Jmol PDB
Consensus coordinates: Rasmol PDB Jmol PDB
Number of loops: 40

Average sequence ID (%) : 21.6 +/- 20.3
Average RMSD (Å) : 0.760 +/- 0.311

Consensus geometry
d (Å): 11 delta (°): 45-90 theta (°): 135-180 rho (°): 270-315
Consensus Sequence: XXhpXGpXh
(φψ)-conformation: aabbpgpbb
Pattern: [afgilmpvy]x[aeknqrst]x[acfilmtv][dehknpqrst]x[dgn][adeqst]x[agilptv][afilpv]x
Conservation:-0.241-0.910-0.386-0.9870.2670.105-0.4352.6990.968-0.9920.499-0.077-0.510
Loops included in this Subclass
LoopPDBChainStartEndSequenceSec StructRamachandran
1a8h_*_3171a8h   -324335LLREIPYGQDTP.HHHHS-TTS-EE.aaaabxxgbxbx.
1afw_A_3801afw   A388400ILRELKKDQIGVVHHHHS-TT-EEEEaaaabbpvxbbbb
1az9_*_51az9   -1527LVEQMQPGSAALIHHHTS-SSEEEEEaaaaxxxvbbbbb
1b5p_A_991b5p   A108120FQAILDPGDEVIVHHHH--TT-EEEEaaaabbpgxbbxb
1bt4_A_761bt4   A8597PMNFLKEGQTANYHHHH--TT-EEEEaaaaxbxgbbxxb
1bw0_A_1121bw0   A121133ITAICDAGDYALVHHHH--TT-EEEEaaaabbpgxbbxb
1c7g_A_991c7g   A107119SQLAIKPGQYVAGHHHH--TTEEEEEaaaabbpvxbbbb
1c7n_A_981c7n   A106118VREFTKPGDGVIIHHHH--TT-EEEEaaaabbpgxxbxb
1c9h_A_571c9h   A6274GAAQMSLGQRAKLHHHT--TT-EEEEaaaabxpvxbbxb
1cl1_A_861cl1   A94106ILAFIEQGDHVLMHHHH--TT-EEEEaaaaxbpvxbbbb
1cs1_A_761cs1   A8496TTVFLKPGDLLVAHHHH--TT-EEEEaaaabbpgxbbbb
1d2f_A_961d2f   A104116IRQWSETGEGVVIHHHSS-TT-EEEEaaaabbpgxbbxb
1dfo_A_981dfo   A106118YTALLEPGDTVLGHHHH--TT-EEEEaaaabbpvxxbbb
1dxy_*_2171dxy   -219231AFNLMKPGAIVINHHHHS-TTEEEEEaaaapxxvxbbbb
1e5e_A_861e5e   A94106VLTILKAGDHLISHHHH--TT-EEEEaaaaxbpgxbbbb
1g60_A_1991g60   A206218IRASSNPNDLVLDHHHH--TT-EEEEaaaabbpvxbbbb
1gc0_A_891gc0   A97109LWTLLRPGDEVLLHHHH--TT-EEEEaaaabbpgxbbxb
1h2b_A_1691h2b   A180192AARTLYPGAYVAIHHTT--TT-EEEEaaaaxbxgxbbxb
1in4_A_901in4   A96108ILTSLERGDVLFIHHHH--TT-EEEEaaaaxbpvxbbxb
1iug_A_601iug   A6880VKNLFAPGERVLVHHHH--TT-EEEEaaaabxpvxxbbb
1j32_A_981j32   A107119MLAMIEPGDEVIIHHHH--TT-EEEEaaaabbpgxbbxb
1j4a_A_2191j4a   A221233SIAKMKQDVVIVNHHHHS-TTEEEEEaaaaxxpvxbbbb
1jf9_A_941jf9   A106118GNSNVRAGDNIIIHHHH--TT-EEEEaaaabbpvxbbbb
1jgt_A_2191jgt   A234246VAQRVTPGDTPLVHHHHS-TT---EEaaaabxpgxxxbb
1jx6_A_1801jx6   A191203FGKFFPKHTYYSVHHHHS-TT-EEEEaaaabxpvxxbbb
1kl1_A_941kl1   A102114YFTVLEHGDTVLGHHHH--TT-EEEEaaaabbpvxxbbb
1m6s_A_581m6s   A6678IMAHTQRGDEVILHHHH--TT-EEEEaaaabbpvxbbxb
1m7y_A_1191m7y   A128140IFCLADPGEAVLIHHHH--TT-EEEEaaaabxpvxbbxb
1mgp_A_2341mgp   A245257LREDTPEGSKLRVHHTTS-TT-EEEEaaaabpxvxxbbb
1nw6_A_2291nw6   A236248VRALSHPGSTVLDHHHHS-TT-EEEEaaaabxpvxxbbb
1o4s_A_971o4s   A106118FMALLDPGDEVIVHHHH--TT-EEEEaaaaxxpvxbbxb
1poi_A_71poi   A1123IAKYVHSGDHIALHHHH--TT-EEEEaaaabbxgpxbbb
1qis_A_1701qis   A176188SLNEAQAGDVVLFHHTT--TT-EEEEaaaaxxxgxxbxb
1qnt_A_941qnt   A102113LLKVVKFGEVIS.HHHH--TT--EE.aaaaxxxvbbbx.
1qpb_A_3671qpb   A374386LGNFLQEGDVVIAHHHH--TT-EEEEaaaaxbxgpbbbb
1ri5_A_441ri5   A5870IRLYTKRGDSVLDHHHH--TT-EEEEaaaabbpvxxbbx
1tpl_A_991tpl   A107119SQLAIKPGQYVAGHHHH--TT-EEEEaaaabxpvxbbbb
1ufk_A_1051ufk   A114126LARHLRPGDKVLDHHHH--TT-EEEEaaaaxbpvxxbbb
1vjo_A_881vjo   A90102IANAVEPGDVVLIHHHH--TT-EEEEaaaabbpvxxbbb
1zym_A_2081zym   A208220VTSQVKNDDYLILHHHH--TT-EEEEaaaabbpvxxbbx
PDB ligands within a cut-off distance of 6 Å in this subclass
LoopPDBChainLigandsResidue
1b5p_A_991b5p   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 99
1b5p_A_991b5p   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 100
1b5p_A_991b5p   A     PLPPYRIDOXAL-5'-PHOSPHATE S - 101
1b5p_A_991b5p   A     PLPPYRIDOXAL-5'-PHOSPHATE Q - 102
1b5p_A_991b5p   A     PLPPYRIDOXAL-5'-PHOSPHATE L - 104
1bt4_A_761bt4   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 76
1bt4_A_761bt4   A     PLPPYRIDOXAL-5'-PHOSPHATE A - 77
1bt4_A_761bt4   A     PLPPYRIDOXAL-5'-PHOSPHATE S - 78
1bt4_A_761bt4   A     PLPPYRIDOXAL-5'-PHOSPHATE T - 79
1bt4_A_761bt4   A     PLPPYRIDOXAL-5'-PHOSPHATE F - 81
1bw0_A_1121bw0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 112
1bw0_A_1121bw0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 113
1bw0_A_1121bw0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) S - 114
1bw0_A_1121bw0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) H - 115
1bw0_A_1121bw0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) I - 117
1c7g_A_991c7g   A     PLPPYRIDOXAL-5'-PHOSPHATE R - 100
1c7g_A_991c7g   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 101
1c7g_A_991c7g   A     PLPPYRIDOXAL-5'-PHOSPHATE E - 103
1c7n_A_981c7n   A     PLPPYRIDOXAL-5'-PHOSPHATE V - 98
1c7n_A_981c7n   A     PLPPYRIDOXAL-5'-PHOSPHATE V - 99
1c7n_A_981c7n   A     PLPPYRIDOXAL-5'-PHOSPHATE P - 100
1c9h_A_571c9h   A     RAPRAPAMYCIN IMMUNOSUPPRESSANT DRUG K - 57
1c9h_A_571c9h   A     RAPRAPAMYCIN IMMUNOSUPPRESSANT DRUG F - 59
1cl1_A_861cl1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 86
1cl1_A_861cl1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) A - 87
1cl1_A_861cl1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) A - 88
1cl1_A_861cl1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) A - 89
1cl1_A_861cl1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) V - 90
1cs1_A_761cs1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 76
1cs1_A_761cs1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) M - 77
1cs1_A_761cs1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) S - 78
1cs1_A_761cs1   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) I - 80
1d2f_A_961d2f   A     PLPPYRIDOXAL-5'-PHOSPHATE V - 96
1d2f_A_961d2f   A     PLPPYRIDOXAL-5'-PHOSPHATE I - 97
1d2f_A_961d2f   A     PLPPYRIDOXAL-5'-PHOSPHATE Y - 98
1dfo_A_981dfo   A     PLGN-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] G - 98
1dfo_A_981dfo   A     PLGN-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] S - 99
1dfo_A_981dfo   A     PLGN-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] Q - 100
1dfo_A_981dfo   A     PLGN-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] N - 102
1e5e_A_861e5e   A     PPJN-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL] PYRIDIN-4-YL}METHYL)NORVALINE G - 86
1e5e_A_861e5e   A     PPJN-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL] PYRIDIN-4-YL}METHYL)NORVALINE M - 87
1e5e_A_861e5e   A     PPJN-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL] PYRIDIN-4-YL}METHYL)NORVALINE G - 88
1e5e_A_861e5e   A     PPJN-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL] PYRIDIN-4-YL}METHYL)NORVALINE I - 90
1g60_A_1991g60   A     SAMS-ADENOSYLMETHIONINE I - 202
1g60_A_1991g60   A     SAMS-ADENOSYLMETHIONINE D - 218
1gc0_A_891gc0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 89
1gc0_A_891gc0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) M - 90
1gc0_A_891gc0   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 91
1h2b_A_1691h2b   A     NAJNICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM) A - 169
1h2b_A_1691h2b   A     ZNZINC ION A - 169
1h2b_A_1691h2b   A     OCAOCTANOIC ACID (CAPRYLIC ACID) T - 172
1h2b_A_1691h2b   A     NAJNICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM) T - 172
1h2b_A_1691h2b   A     NAJNICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM) V - 193
1in4_A_901in4   A     ADPADENOSINE-5'-DIPHOSPHATE F - 107
1in4_A_901in4   A     ADPADENOSINE-5'-DIPHOSPHATE D - 109
1iug_A_601iug   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 60
1iug_A_601iug   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) T - 61
1iug_A_601iug   A     PO4PHOSPHATE ION T - 61
1iug_A_601iug   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) L - 62
1iug_A_601iug   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) M - 64
1j32_A_981j32   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 98
1j32_A_981j32   A     PLPPYRIDOXAL-5'-PHOSPHATE K - 100
1j32_A_981j32   A     PLPPYRIDOXAL-5'-PHOSPHATE Q - 101
1j32_A_981j32   A     PLPPYRIDOXAL-5'-PHOSPHATE I - 103
1jf9_A_941jf9   A     PLPPYRIDOXAL-5'-PHOSPHATE T - 94
1jf9_A_941jf9   A     PLPPYRIDOXAL-5'-PHOSPHATE T - 95
1jf9_A_941jf9   A     PLPPYRIDOXAL-5'-PHOSPHATE E - 96
1jf9_A_941jf9   A     PLPPYRIDOXAL-5'-PHOSPHATE I - 98
1jgt_A_2191jgt   A     APCDIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER V - 246
1jgt_A_2191jgt   A     APCDIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER V - 247
1jx6_A_1801jx6   A     AI23A-METHYL-5,6-DIHYDRO-FURO[2,3-D][1,3,2]DIOXABOROLE-2, 2,6,6A-TETRAOL H - 180
1kl1_A_941kl1   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 94
1kl1_A_941kl1   A     PLPPYRIDOXAL-5'-PHOSPHATE A - 95
1kl1_A_941kl1   A     PLPPYRIDOXAL-5'-PHOSPHATE Q - 96
1kl1_A_941kl1   A     PLPPYRIDOXAL-5'-PHOSPHATE N - 98
1m6s_A_581m6s   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) G - 58
1m6s_A_581m6s   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) T - 59
1m6s_A_581m6s   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) M - 60
1m6s_A_581m6s   A     LLP2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE) N - 62
1m7y_A_1191m7y   A     PPG4-(2-AMINO-ETHOXY)-2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-BUT-3-ENOIC ACID G - 119
1m7y_A_1191m7y   A     PPG4-(2-AMINO-ETHOXY)-2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-BUT-3-ENOIC ACID A - 120
1m7y_A_1191m7y   A     PPG4-(2-AMINO-ETHOXY)-2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-BUT-3-ENOIC ACID T - 121
1m7y_A_1191m7y   A     MPD2-METHYL-2,4-PENTANEDIOL T - 121
1m7y_A_1191m7y   A     PPG4-(2-AMINO-ETHOXY)-2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-BUT-3-ENOIC ACID S - 122
1m7y_A_1191m7y   A     PPG4-(2-AMINO-ETHOXY)-2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-BUT-3-ENOIC ACID N - 124
1mgp_A_2341mgp   A     PLMPALMITIC ACID I - 258
1mgp_A_2341mgp   A     MSESELENOMETHIONINE V - 260
1mgp_A_2341mgp   A     PLMPALMITIC ACID V - 260
1mgp_A_2341mgp   A     MSESELENOMETHIONINE H - 261
1o4s_A_971o4s   A     PLPPYRIDOXAL-5'-PHOSPHATE G - 97
1o4s_A_971o4s   A     PLPPYRIDOXAL-5'-PHOSPHATE A - 98
1o4s_A_971o4s   A     PLPPYRIDOXAL-5'-PHOSPHATE K - 99
1o4s_A_971o4s   A     PLPPYRIDOXAL-5'-PHOSPHATE Q - 100
1o4s_A_971o4s   A     PLPPYRIDOXAL-5'-PHOSPHATE L - 102
1poi_A_71poi   A     CUCOPPER (II) ION A - 12
1poi_A_71poi   A     CUCOPPER (II) ION V - 15
1poi_A_71poi   A     CUCOPPER (II) ION H - 16
1poi_A_71poi   A     CUCOPPER (II) ION S - 17
1qis_A_1701qis   A     PLPPYRIDOXAL-5'-PHOSPHATE H - 189
1qpb_A_3671qpb   A     TPPTHIAMINE DIPHOSPHATE Q - 367
1vjo_A_881vjo   A     MSESELENOMETHIONINE A - 88
1vjo_A_881vjo   A     MSESELENOMETHIONINE T - 89
1vjo_A_881vjo   A     MSESELENOMETHIONINE I - 90
1vjo_A_881vjo   A     MSESELENOMETHIONINE A - 91
1vjo_A_881vjo   A     MSESELENOMETHIONINE N - 92
1vjo_A_881vjo   A     MSESELENOMETHIONINE A - 93
PDB Site Annotated loops in this subclass
LoopPDBChainSiteResidue
1afw_A_3801afw   A AVAACTIVE SITE IN CHAIN A.C - 403

Clusters included in this Subclass
CLUSTER: HE.5.10
CLUSTER: HE.6.2
CLUSTER: HE.6.282
CLUSTER: HE.7.204