5IF0 - Sequence, Chains, Asymmetric and Biological Units

• Title: CRYSTAL STRUCTURE OF VRC01C-HUGL2 FAB FROM AN HIV-1 NAIVE DO COMPLEX WITH WITH A GERMLINE-TARGETING GP120 ENGINEERED OUT EOD-GT8 AT 2.44 A
• Keywords: HIV-1 GP120, ENGINEERED OUTER DOMAIN (EOD), GERMLINE TARGETI BINDING SITE, VRC01-CLASS NAIVE HUMAN GERMLINE ANTIBODY, IM SYSTEM, VIRAL-PROTEIN COMPLEX, IMMUNE SYSTEM-VIRAL PROTEIN
• Experiment: X-ray diffraction
• Number of Models: 1

Database	ID code	Status	Coordinate files
			Header	Asymmetric unit	Biological unit
PDB	5IF0	released	available	available	Quaternary Structure Server

Asymmetric unit from PDB

Unit	Type	Name	Chain ID	Residues	Atoms	Hetatoms
1	Protein	VRC01CHUGL2 FAB HEAVY CHAIN	A	219	1637	0
2	Protein	VRC01C-HUGL2 FAB LIGHT CHAIN	B	206	1574	0
3	Protein	GERMLINE-TARGETING HIV-1 GP120 ENGINEERED OUTER D GT8	G	169	1253	0
4	Protein	VRC01CHUGL2 FAB HEAVY CHAIN	H	219	1638	0
5	Protein	GERMLINE-TARGETING HIV-1 GP120 ENGINEERED OUTER D GT8	I	169	1264	0
6	Protein	VRC01C-HUGL2 FAB LIGHT CHAIN	L	206	1578	0
7	Ligand	GERMLINE-TARGETING HIV-1 GP120 ENGINEERED OUTER D GT8	G	2	0	28
8	Ligand	GERMLINE-TARGETING HIV-1 GP120 ENGINEERED OUTER D GT8	I	2	0	28
9	Ligand	VRC01C-HUGL2 FAB LIGHT CHAIN	L	1	0	5
10	Water			76	0	76
total				1269	8944	137

Proteins

Unit 1	GLN 1 VAL 2 GLN 3 LEU 4 VAL 5 GLN 6 SER 7 GLY 8 ALA 9 GLU 10 VAL 11 LYS 12 LYS 13 PRO 14 GLY 15 ALA 16 SER 17 VAL 18 LYS 19 VAL 20 SER 21 CYS 22 LYS 23 ALA 24 SER 25 GLY 26 TYR 27 THR 28 PHE 29 THR 30 GLY 31 TYR 32 TYR 33 MET 34 HIS 35 TRP 36 VAL 37 ARG 38 GLN 39 ALA 40 PRO 41 GLY 42 GLN 43 GLY 44 LEU 45 GLU 46 TRP 47 MET 48 GLY 49 TRP 50 ILE 51 ASN 52 PRO 52A ASN 53 SER 54 GLY 55 GLY 56 THR 57 ASN 58 TYR 59 ALA 60 GLN 61 LYS 62 PHE 63 GLN 64 GLY 65 ARG 66 VAL 67 THR 68 MET 69 THR 70 ARG 71 ASP 72 THR 73 SER 74 ILE 75 SER 76 THR 77 ALA 78 TYR 79 MET 80 GLU 81 LEU 82 SER 82A ARG 82B LEU 82C ARG 83 SER 84 ASP 85 ASP 86 THR 87 ALA 88 VAL 89 TYR 90 TYR 91 CYS 92 ALA 93 LYS 94 ILE 95 SER 96 GLY 97 SER 98 TYR 99 SER 100 PHE 100A ASP 101 TYR 102 TRP 103 GLY 104 GLN 105 GLY 106 THR 107 LEU 108 VAL 109 THR 110 VAL 111 SER 112 SER 113 ALA 114 SER 115 THR 116 LYS 117 GLY 118 PRO 119 SER 120 VAL 121 PHE 122 PRO 123 LEU 124 ALA 125 PRO 126 SER 127 SER 128 LYS 129 SER 130 THR 131 SER 132 GLY 133 GLY 134 THR 135 ALA 136 ALA 137 LEU 138 GLY 139 CYS 140 LEU 141 VAL 142 LYS 143 ASP 144 TYR 145 PHE 146 PRO 147 GLU 148 PRO 149 VAL 150 THR 151 VAL 152 SER 153 TRP 154 ASN 155 SER 156 GLY 157 ALA 158 LEU 159 THR 160 SER 161 GLY 162 VAL 163 HIS 164 THR 165 PHE 166 PRO 167 ALA 168 VAL 169 LEU 170 GLN 171 SER 172 SER 173 GLY 174 LEU 175 TYR 176 SER 177 LEU 178 SER 179 SER 180 VAL 181 VAL 182 THR 183 VAL 184 PRO 185 SER 186 SER 187 SER 188 LEU 189 GLY 190 THR 191 GLN 192 THR 193 TYR 194 ILE 195 CYS 196 ASN 197 VAL 198 ASN 199 HIS 200 LYS 201 PRO 202 SER 203 ASN 204 THR 205 LYS 206 VAL 207 ASP 208 LYS 209 LYS 210 VAL 211 GLU 212 PRO 213 LYS 214
Unit 2	ASP 1 ILE 2 VAL 3 MET 4 THR 5 GLN 6 SER 7 PRO 8 ASP 9 SER 10 LEU 11 ALA 12 VAL 13 SER 14 LEU 15 GLY 16 GLU 17 ARG 18 ALA 19 THR 20 ILE 21 ASN 22 CYS 23 LYS 24 SER 25 SER 26 GLN 27 LYS 30 ASN 31 TYR 32 LEU 33 ALA 34 TRP 35 TYR 36 GLN 37 GLN 38 LYS 39 PRO 40 GLY 41 GLN 42 PRO 43 PRO 44 LYS 45 LEU 46 LEU 47 ILE 48 TYR 49 TRP 50 ALA 51 SER 52 THR 53 ARG 54 GLU 55 SER 56 GLY 57 VAL 58 PRO 59 ASP 60 ARG 61 PHE 62 SER 63 GLY 64 SER 65 GLY 66 SER 67 GLY 68 THR 69 ASP 70 PHE 71 THR 72 LEU 73 THR 74 ILE 75 SER 76 SER 77 LEU 78 GLN 79 ALA 80 GLU 81 ASP 82 VAL 83 ALA 84 VAL 85 TYR 86 TYR 87 CYS 88 GLN 89 GLN 90 TYR 91 TYR 96 SER 97 PHE 98 GLY 99 GLY 100 GLY 101 THR 102 LYS 103 VAL 104 GLU 105 ILE 106 LYS 107 ARG 108 THR 109 VAL 110 ALA 111 ALA 112 PRO 113 SER 114 VAL 115 PHE 116 ILE 117 PHE 118 PRO 119 PRO 120 SER 121 ASP 122 GLU 123 GLN 124 LEU 125 LYS 126 SER 127 GLY 128 THR 129 ALA 130 SER 131 VAL 132 VAL 133 CYS 134 LEU 135 LEU 136 ASN 137 ASN 138 PHE 139 TYR 140 PRO 141 ARG 142 GLU 143 ALA 144 LYS 145 VAL 146 GLN 147 TRP 148 LYS 149 VAL 150 ASP 151 ASN 152 ALA 153 LEU 154 GLN 155 SER 156 GLY 157 ASN 158 SER 159 GLN 160 GLU 161 SER 162 VAL 163 THR 164 GLU 165 GLN 166 ASP 167 SER 168 LYS 169 ASP 170 SER 171 THR 172 TYR 173 SER 174 LEU 175 SER 176 SER 177 THR 178 LEU 179 THR 180 LEU 181 SER 182 LYS 183 ALA 184 ASP 185 TYR 186 GLU 187 LYS 188 HIS 189 LYS 190 VAL 191 TYR 192 ALA 193 CYS 194 GLU 195 VAL 196 THR 197 HIS 198 GLN 199 GLY 200 LEU 201 ARG 202 SER 203 PRO 204 VAL 205 THR 206 LYS 207 SER 208 PHE 209 ASN 210 ARG 211 GLY 212
Unit 3	ASP 1 THR 2 ILE 3 THR 4 LEU 5 PRO 6 CYS 7 ARG 8 PRO 9 ALA 10 PRO 11 PRO 12 PRO 13 HIS 14 CYS 15 SER 16 SER 17 ASN 18 ILE 19 THR 20 GLY 21 LEU 22 ILE 23 LEU 24 THR 25 ARG 26 GLN 27 GLY 28 GLY 29 TYR 30 SER 31 ASN 32 ALA 33 ASN 34 THR 35 VAL 36 ILE 37 PHE 38 ARG 39 PRO 40 SER 41 GLY 42 GLY 43 ASP 44 TRP 45 ARG 46 ASP 47 ILE 48 ALA 49 ARG 50 CYS 51 GLN 52 ILE 53 ALA 54 GLY 55 THR 56 VAL 57 VAL 58 SER 59 THR 60 GLN 61 LEU 62 PHE 63 LEU 64 ASN 65 GLY 66 SER 67 LEU 68 ALA 69 GLU 70 GLU 71 GLU 72 VAL 73 VAL 74 ILE 75 ARG 76 SER 77 GLU 78 ASP 79 TRP 80 ARG 81 ASP 82 ASN 83 ALA 84 LYS 85 SER 86 ILE 87 CYS 88 VAL 89 GLN 90 LEU 91 ALA 92 THR 93 SER 94 VAL 95 GLU 96 ILE 97 ALA 98 CYS 99 THR 100 GLY 101 ALA 102 GLY 103 HIS 104 CYS 105 ALA 106 ILE 107 SER 108 ARG 109 ALA 110 LYS 111 TRP 112 ALA 113 ASN 114 THR 115 LEU 116 LYS 117 GLN 118 ILE 119 ALA 120 SER 121 LYS 122 LEU 123 ARG 124 GLU 125 GLN 126 TYR 127 GLY 128 ALA 129 LYS 130 THR 131 ILE 132 ILE 133 PHE 134 LYS 135 PRO 136 SER 137 SER 138 GLY 139 GLY 140 ASP 141 PRO 142 GLU 143 PHE 144 VAL 145 ASN 146 HIS 147 SER 148 PHE 149 ASN 150 CYS 151 GLY 152 GLY 153 GLU 154 PHE 155 PHE 156 TYR 157 CYS 158 ALA 159 SER 160 THR 161 GLN 162 LEU 163 PHE 164 ALA 165 SER 166 THR 167 TRP 168 PHE 169
Unit 4	GLN 1 VAL 2 GLN 3 LEU 4 VAL 5 GLN 6 SER 7 GLY 8 ALA 9 GLU 10 VAL 11 LYS 12 LYS 13 PRO 14 GLY 15 ALA 16 SER 17 VAL 18 LYS 19 VAL 20 SER 21 CYS 22 LYS 23 ALA 24 SER 25 GLY 26 TYR 27 THR 28 PHE 29 THR 30 GLY 31 TYR 32 TYR 33 MET 34 HIS 35 TRP 36 VAL 37 ARG 38 GLN 39 ALA 40 PRO 41 GLY 42 GLN 43 GLY 44 LEU 45 GLU 46 TRP 47 MET 48 GLY 49 TRP 50 ILE 51 ASN 52 PRO 52A ASN 53 SER 54 GLY 55 GLY 56 THR 57 ASN 58 TYR 59 ALA 60 GLN 61 LYS 62 PHE 63 GLN 64 GLY 65 ARG 66 VAL 67 THR 68 MET 69 THR 70 ARG 71 ASP 72 THR 73 SER 74 ILE 75 SER 76 THR 77 ALA 78 TYR 79 MET 80 GLU 81 LEU 82 SER 82A ARG 82B LEU 82C ARG 83 SER 84 ASP 85 ASP 86 THR 87 ALA 88 VAL 89 TYR 90 TYR 91 CYS 92 ALA 93 LYS 94 ILE 95 SER 96 GLY 97 SER 98 TYR 99 SER 100 PHE 100A ASP 101 TYR 102 TRP 103 GLY 104 GLN 105 GLY 106 THR 107 LEU 108 VAL 109 THR 110 VAL 111 SER 112 SER 113 ALA 114 SER 115 THR 116 LYS 117 GLY 118 PRO 119 SER 120 VAL 121 PHE 122 PRO 123 LEU 124 ALA 125 PRO 126 SER 127 SER 128 LYS 129 SER 130 THR 131 SER 132 GLY 133 GLY 134 THR 135 ALA 136 ALA 137 LEU 138 GLY 139 CYS 140 LEU 141 VAL 142 LYS 143 ASP 144 TYR 145 PHE 146 PRO 147 GLU 148 PRO 149 VAL 150 THR 151 VAL 152 SER 153 TRP 154 ASN 155 SER 156 GLY 157 ALA 158 LEU 159 THR 160 SER 161 GLY 162 VAL 163 HIS 164 THR 165 PHE 166 PRO 167 ALA 168 VAL 169 LEU 170 GLN 171 SER 172 SER 173 GLY 174 LEU 175 TYR 176 SER 177 LEU 178 SER 179 SER 180 VAL 181 VAL 182 THR 183 VAL 184 PRO 185 SER 186 SER 187 SER 188 LEU 189 GLY 190 THR 191 GLN 192 THR 193 TYR 194 ILE 195 CYS 196 ASN 197 VAL 198 ASN 199 HIS 200 LYS 201 PRO 202 SER 203 ASN 204 THR 205 LYS 206 VAL 207 ASP 208 LYS 209 LYS 210 VAL 211 GLU 212 PRO 213 LYS 214
Unit 5	ASP 1 THR 2 ILE 3 THR 4 LEU 5 PRO 6 CYS 7 ARG 8 PRO 9 ALA 10 PRO 11 PRO 12 PRO 13 HIS 14 CYS 15 SER 16 SER 17 ASN 18 ILE 19 THR 20 GLY 21 LEU 22 ILE 23 LEU 24 THR 25 ARG 26 GLN 27 GLY 28 GLY 29 TYR 30 SER 31 ASN 32 ALA 33 ASN 34 THR 35 VAL 36 ILE 37 PHE 38 ARG 39 PRO 40 SER 41 GLY 42 GLY 43 ASP 44 TRP 45 ARG 46 ASP 47 ILE 48 ALA 49 ARG 50 CYS 51 GLN 52 ILE 53 ALA 54 GLY 55 THR 56 VAL 57 VAL 58 SER 59 THR 60 GLN 61 LEU 62 PHE 63 LEU 64 ASN 65 GLY 66 SER 67 LEU 68 ALA 69 GLU 70 GLU 71 GLU 72 VAL 73 VAL 74 ILE 75 ARG 76 SER 77 GLU 78 ASP 79 TRP 80 ARG 81 ASP 82 ASN 83 ALA 84 LYS 85 SER 86 ILE 87 CYS 88 VAL 89 GLN 90 LEU 91 ALA 92 THR 93 SER 94 VAL 95 GLU 96 ILE 97 ALA 98 CYS 99 THR 100 GLY 101 ALA 102 GLY 103 HIS 104 CYS 105 ALA 106 ILE 107 SER 108 ARG 109 ALA 110 LYS 111 TRP 112 ALA 113 ASN 114 THR 115 LEU 116 LYS 117 GLN 118 ILE 119 ALA 120 SER 121 LYS 122 LEU 123 ARG 124 GLU 125 GLN 126 TYR 127 GLY 128 ALA 129 LYS 130 THR 131 ILE 132 ILE 133 PHE 134 LYS 135 PRO 136 SER 137 SER 138 GLY 139 GLY 140 ASP 141 PRO 142 GLU 143 PHE 144 VAL 145 ASN 146 HIS 147 SER 148 PHE 149 ASN 150 CYS 151 GLY 152 GLY 153 GLU 154 PHE 155 PHE 156 TYR 157 CYS 158 ALA 159 SER 160 THR 161 GLN 162 LEU 163 PHE 164 ALA 165 SER 166 THR 167 TRP 168 PHE 169
Unit 6	ASP 1 ILE 2 VAL 3 MET 4 THR 5 GLN 6 SER 7 PRO 8 ASP 9 SER 10 LEU 11 ALA 12 VAL 13 SER 14 LEU 15 GLY 16 GLU 17 ARG 18 ALA 19 THR 20 ILE 21 ASN 22 CYS 23 LYS 24 SER 25 SER 26 GLN 27 LYS 30 ASN 31 TYR 32 LEU 33 ALA 34 TRP 35 TYR 36 GLN 37 GLN 38 LYS 39 PRO 40 GLY 41 GLN 42 PRO 43 PRO 44 LYS 45 LEU 46 LEU 47 ILE 48 TYR 49 TRP 50 ALA 51 SER 52 THR 53 ARG 54 GLU 55 SER 56 GLY 57 VAL 58 PRO 59 ASP 60 ARG 61 PHE 62 SER 63 GLY 64 SER 65 GLY 66 SER 67 GLY 68 THR 69 ASP 70 PHE 71 THR 72 LEU 73 THR 74 ILE 75 SER 76 SER 77 LEU 78 GLN 79 ALA 80 GLU 81 ASP 82 VAL 83 ALA 84 VAL 85 TYR 86 TYR 87 CYS 88 GLN 89 GLN 90 TYR 91 TYR 96 SER 97 PHE 98 GLY 99 GLY 100 GLY 101 THR 102 LYS 103 VAL 104 GLU 105 ILE 106 LYS 107 ARG 108 THR 109 VAL 110 ALA 111 ALA 112 PRO 113 SER 114 VAL 115 PHE 116 ILE 117 PHE 118 PRO 119 PRO 120 SER 121 ASP 122 GLU 123 GLN 124 LEU 125 LYS 126 SER 127 GLY 128 THR 129 ALA 130 SER 131 VAL 132 VAL 133 CYS 134 LEU 135 LEU 136 ASN 137 ASN 138 PHE 139 TYR 140 PRO 141 ARG 142 GLU 143 ALA 144 LYS 145 VAL 146 GLN 147 TRP 148 LYS 149 VAL 150 ASP 151 ASN 152 ALA 153 LEU 154 GLN 155 SER 156 GLY 157 ASN 158 SER 159 GLN 160 GLU 161 SER 162 VAL 163 THR 164 GLU 165 GLN 166 ASP 167 SER 168 LYS 169 ASP 170 SER 171 THR 172 TYR 173 SER 174 LEU 175 SER 176 SER 177 THR 178 LEU 179 THR 180 LEU 181 SER 182 LYS 183 ALA 184 ASP 185 TYR 186 GLU 187 LYS 188 HIS 189 LYS 190 VAL 191 TYR 192 ALA 193 CYS 194 GLU 195 VAL 196 THR 197 HIS 198 GLN 199 GLY 200 LEU 201 ARG 202 SER 203 PRO 204 VAL 205 THR 206 LYS 207 SER 208 PHE 209 ASN 210 ARG 211 GLY 212

Ligands

Unit 7	NAG 1001 NAG 1002
Unit 8	NAG 201 NAG 202
Unit 9	PO4 301