1KY5 - JenaLib

Asym./Biol. Unit - manually (Jmol Viewer)

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   D244E MUTANT S-ADENOSYLHOMOCYSTEINE HYDROLASE REFINED WITH NONCRYSTALLOGRAPHIC RESTRAINTS

Authors :   Y. Takata, F. Takusagawa

Date :   03 Feb 02 (Deposition) - 25 Sep 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Hydrolase, S-Adenosylhomocysteine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Takata, T. Yamada, Y. Huang, J. Komoto, T. Gomi, H. Ogawa, M. Fujioka, F. Takusagawa
Catalytic Mechanism Of S-Adenosylhomocysteine Hydrolase. Site-Directed Mutagenesis Of Asp-130, Lys-185, Asp-189, And Asn-190.
J. Biol. Chem. V. 277 22670 2002
PubMed-ID: 11927587 | Reference-DOI: 10.1074/JBC.M201116200
(for further references see the PDB file header)

Molecule 1 - S-ADENOSYLHOMOCYSTEINE HYDROLASE
	Chains	:	A, B, C, D
	EC Number	:	3.3.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organ	:	LIVER
	Organism Common	:	NORWAY RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	ADENOSYLHOMOCYSTEINASE, ADOHCYASE

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 8)

No.	Name	Count	Type	Full Name
1	ADY	4	Ligand/Ion	3'-OXO-ADENOSINE
2	NAI	4	Ligand/Ion	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:156 , THR A:157 , THR A:158 , ASN A:190 , GLY A:219 , GLY A:221 , ASP A:222 , VAL A:223 , THR A:241 , GLU A:242 , ILE A:243 , GLU A:244 , ASN A:247 , THR A:274 , THR A:275 , ILE A:280 , ILE A:298 , GLY A:299 , HIS A:300 , LEU A:343 , ASN A:345 , HIS A:352 , ADY A:433 , LYS B:1425 , TYR B:1429	BINDING SITE FOR RESIDUE NAI A 432
2	AC2	SOFTWARE	LEU A:53 , HIS A:54 , THR A:56 , GLU A:58 , THR A:59 , ASP A:130 , GLU A:155 , THR A:156 , LYS A:185 , ASP A:189 , HIS A:300 , MET A:350 , GLY A:351 , HIS A:352 , MET A:357 , PHE A:361 , NAI A:432	BINDING SITE FOR RESIDUE ADY A 433
3	AC3	SOFTWARE	LYS A:425 , TYR A:429 , THR B:1156 , THR B:1157 , THR B:1158 , ASN B:1190 , GLY B:1219 , GLY B:1221 , ASP B:1222 , VAL B:1223 , THR B:1241 , GLU B:1242 , ILE B:1243 , GLU B:1244 , ASN B:1247 , THR B:1274 , THR B:1275 , ILE B:1280 , ILE B:1298 , GLY B:1299 , HIS B:1300 , LEU B:1343 , ASN B:1345 , HIS B:1352	BINDING SITE FOR RESIDUE NAI B 1432
4	AC4	SOFTWARE	LEU B:1053 , HIS B:1054 , THR B:1056 , GLU B:1058 , THR B:1059 , ASP B:1130 , GLU B:1155 , THR B:1156 , LYS B:1185 , ASP B:1189 , HIS B:1300 , MET B:1350 , HIS B:1352 , MET B:1357 , PHE B:1361	BINDING SITE FOR RESIDUE ADY B 1433
5	AC5	SOFTWARE	THR C:2156 , THR C:2157 , THR C:2158 , ASN C:2190 , GLY C:2219 , GLY C:2221 , ASP C:2222 , VAL C:2223 , THR C:2241 , GLU C:2242 , ILE C:2243 , GLU C:2244 , ASN C:2247 , THR C:2274 , THR C:2275 , ILE C:2280 , ILE C:2298 , GLY C:2299 , HIS C:2300 , LEU C:2343 , ASN C:2345 , HIS C:2352 , LEU D:3408 , LYS D:3425 , TYR D:3429	BINDING SITE FOR RESIDUE NAI C 2432
6	AC6	SOFTWARE	LEU C:2053 , HIS C:2054 , THR C:2056 , GLU C:2058 , THR C:2059 , ASP C:2130 , GLU C:2155 , THR C:2156 , LYS C:2185 , ASP C:2189 , HIS C:2300 , MET C:2350 , HIS C:2352 , MET C:2357 , PHE C:2361	BINDING SITE FOR RESIDUE ADY C 2433
7	AC7	SOFTWARE	LYS C:2425 , TYR C:2429 , THR D:3156 , THR D:3157 , THR D:3158 , ASN D:3190 , GLY D:3219 , GLY D:3221 , ASP D:3222 , VAL D:3223 , THR D:3241 , GLU D:3242 , ILE D:3243 , GLU D:3244 , ASN D:3247 , THR D:3274 , THR D:3275 , ILE D:3280 , ILE D:3298 , GLY D:3299 , HIS D:3300 , LEU D:3343 , ASN D:3345 , HIS D:3352	BINDING SITE FOR RESIDUE NAI D 3432
8	AC8	SOFTWARE	LEU D:3053 , HIS D:3054 , THR D:3056 , GLU D:3058 , THR D:3059 , ASP D:3130 , GLU D:3155 , THR D:3156 , LYS D:3185 , ASP D:3189 , HIS D:3300 , MET D:3350 , HIS D:3352 , MET D:3357 , PHE D:3361	BINDING SITE FOR RESIDUE ADY D 3433

(no "SS Bond" information available for 1KY5)

(no "Cis Peptide Bond" information available for 1KY5)

(no "SAP(SNP)/Variant" information available for 1KY5)

Asymmetric/Biological Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADOHCYASE_1	PS00738	S-adenosyl-L-homocysteine hydrolase signature 1.	SAHH_RAT	78-92	4	A:77-91 B:1077-1091 C:2077-2091 D:3077-3091
2	ADOHCYASE_2	PS00739	S-adenosyl-L-homocysteine hydrolase signature 2.	SAHH_RAT	213-229	4	A:212-228 B:1212-1228 C:2212-2228 D:3212-3228

Asymmetric/Biological Unit (10, 40)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSRNOT00000024310	1	ENSRNOE00000170864	chr3:145560052-145560005	48	SAHH_RAT	1-10	10	4	A:2-9 B:1002-1009 C:2002-2009 D:3002-3009	8 8 8 8
1.2	ENSRNOT00000024310	2	ENSRNOE00000170967	chr3:145553987-145553797	191	SAHH_RAT	10-73	64	4	A:9-72 B:1009-1072 C:2009-2072 D:3009-3072	64 64 64 64
1.3	ENSRNOT00000024310	3	ENSRNOE00000294915	chr3:145552338-145552263	76	SAHH_RAT	74-99	26	4	A:73-98 B:1073-1098 C:2073-2098 D:3073-3098	26 26 26 26
1.4	ENSRNOT00000024310	4	ENSRNOE00000171132	chr3:145550643-145550494	150	SAHH_RAT	99-149	51	4	A:98-148 B:1098-1148 C:2098-2148 D:3098-3148	51 51 51 51
1.5	ENSRNOT00000024310	5	ENSRNOE00000323260	chr3:145549883-145549771	113	SAHH_RAT	149-186	38	4	A:148-185 B:1148-1185 C:2148-2185 D:3148-3185	38 38 38 38
1.6	ENSRNOT00000024310	6	ENSRNOE00000171339	chr3:145549377-145549170	208	SAHH_RAT	187-256	70	4	A:186-255 B:1186-1255 C:2186-2255 D:3186-3255	70 70 70 70
1.7	ENSRNOT00000024310	7	ENSRNOE00000171520	chr3:145549090-145549003	88	SAHH_RAT	256-285	30	4	A:255-284 B:1255-1284 C:2255-2284 D:3255-3284	30 30 30 30
1.8	ENSRNOT00000024310	8	ENSRNOE00000171706	chr3:145548909-145548792	118	SAHH_RAT	285-324	40	4	A:284-323 B:1284-1323 C:2284-2323 D:3284-3323	40 40 40 40
1.9	ENSRNOT00000024310	9	ENSRNOE00000171914	chr3:145547384-145547190	195	SAHH_RAT	325-389	65	4	A:324-388 B:1324-1388 C:2324-2388 D:3324-3388	65 65 65 65
1.10	ENSRNOT00000024310	10	ENSRNOE00000172116	chr3:145545669-145544834	836	SAHH_RAT	390-432	43	4	A:389-431 B:1389-1431 C:2389-2431 D:3389-3431	43 43 43 43

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:430
 aligned with SAHH_RAT | P10760 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:430
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432
            SAHH_RAT      3 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY  432
               SCOP domains d1ky5a2 A:2-189,A:353-431 S-adenosylhomocystein hydrolase                                                                                                                                   d1ky5a1 A:190-352 S-adenosylhomocystein hydrolase                                                                                                                  d1ky5a2 A:2-189,A:353-431 S-adenosylhomocystein hydrolase                       SCOP domains
               CATH domains 1ky5A01 A:2-191,A:352-403  [code=3.40.50.1480, no name defined]                                                                                                                               1ky5A02 A:192-351 NAD(P)-binding Rossmann-like Domain                                                                                                           1ky5A01 A:2-191,A:352-403                           ---------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...ee.....hhhhhhhhhhhh.ee..ee..eeee..hhhhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhh......eee...hhhhhh...hhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh..eeeee..hhhhhhhhhhh..ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhh............hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------ADOHCYASE_1    ------------------------------------------------------------------------------------------------------------------------ADOHCYASE_2      ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1---------------------------------------------------------------Exon 1.3  PDB: A:73-98    -------------------------------------------------Exon 1.5  PDB: A:148-185              Exon 1.6  PDB: A:186-255 UniProt: 187-256                             ----------------------------Exon 1.8  PDB: A:284-323                Exon 1.9  PDB: A:324-388 UniProt: 325-389                        Exon 1.10  PDB: A:389-431 UniProt: 390-432  Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.2  PDB: A:9-72 UniProt: 10-73                            -------------------------Exon 1.4  PDB: A:98-148 UniProt: 99-149            ----------------------------------------------------------------------------------------------------------Exon 1.7  PDB: A:255-284      --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                1ky5 A    2 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIEPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY  431
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431

Chain B from PDB  Type:PROTEIN  Length:430
 aligned with SAHH_RAT | P10760 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:430
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432
            SAHH_RAT      3 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY  432
               SCOP domains d1ky5b2 B:1002-1189,B:1353-1431 S-adenosylhomocystein hydrolase                                                                                                                             d1ky5b1 B:1190-1352 S-adenosylhomocystein hydrolase                                                                                                                d1ky5b2 B:1002-1189,B:1353-1431 S-adenosylhomocystein hydrolase                 SCOP domains
               CATH domains 1ky5B01 B:1002-1191,B:1352-1403  [code=3.40.50.1480, no name defined]                                                                                                                         1ky5B02 B:1192-1351 NAD(P)-binding Rossmann-like Domain                                                                                                         1ky5B01 B:1002-1191,B:1352-1403                     ---------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...ee.....hhhhhhhhhhhh.ee..ee..eeee..hhhhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhh......eee...hhhhhh.hhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhh...eeeee..hhhhhhhhhh...ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhh............hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------ADOHCYASE_1    ------------------------------------------------------------------------------------------------------------------------ADOHCYASE_2      ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1---------------------------------------------------------------Exon 1.3  PDB: B:1073-1098-------------------------------------------------Exon 1.5  PDB: B:1148-1185            Exon 1.6  PDB: B:1186-1255 UniProt: 187-256                           ----------------------------Exon 1.8  PDB: B:1284-1323              Exon 1.9  PDB: B:1324-1388 UniProt: 325-389                      Exon 1.10  PDB: B:1389-1431                 Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.2  PDB: B:1009-1072 UniProt: 10-73                       -------------------------Exon 1.4  PDB: B:1098-1148 UniProt: 99-149         ----------------------------------------------------------------------------------------------------------Exon 1.7  PDB: B:1255-1284    --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                1ky5 B 1002 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIEPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY 1431
                                  1011      1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121      1131      1141      1151      1161      1171      1181      1191      1201      1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351      1361      1371      1381      1391      1401      1411      1421      1431

Chain C from PDB  Type:PROTEIN  Length:430
 aligned with SAHH_RAT | P10760 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:430
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432
            SAHH_RAT      3 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY  432
               SCOP domains d1ky5c2 C:2002-2189,C:2353-2431 S-adenosylhomocystein hydrolase                                                                                                                             d1ky5c1 C:2190-2352 S-adenosylhomocystein hydrolase                                                                                                                d1ky5c2 C:2002-2189,C:2353-2431 S-adenosylhomocystein hydrolase                 SCOP domains
               CATH domains 1ky5C01 C:2002-2191,C:2352-2403  [code=3.40.50.1480, no name defined]                                                                                                                         1ky5C02 C:2192-2351 NAD(P)-binding Rossmann-like Domain                                                                                                         1ky5C01 C:2002-2191,C:2352-2403                     ---------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...ee.....hhhhhhhhhhhh.ee..ee..eeee..hhhhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhh......eee...hhhhhh...hhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhh...eeeee..hhhhhhhhhh...ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhh............hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------ADOHCYASE_1    ------------------------------------------------------------------------------------------------------------------------ADOHCYASE_2      ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1---------------------------------------------------------------Exon 1.3  PDB: C:2073-2098-------------------------------------------------Exon 1.5  PDB: C:2148-2185            Exon 1.6  PDB: C:2186-2255 UniProt: 187-256                           ----------------------------Exon 1.8  PDB: C:2284-2323              Exon 1.9  PDB: C:2324-2388 UniProt: 325-389                      Exon 1.10  PDB: C:2389-2431                 Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.2  PDB: C:2009-2072 UniProt: 10-73                       -------------------------Exon 1.4  PDB: C:2098-2148 UniProt: 99-149         ----------------------------------------------------------------------------------------------------------Exon 1.7  PDB: C:2255-2284    --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                1ky5 C 2002 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIEPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY 2431
                                  2011      2021      2031      2041      2051      2061      2071      2081      2091      2101      2111      2121      2131      2141      2151      2161      2171      2181      2191      2201      2211      2221      2231      2241      2251      2261      2271      2281      2291      2301      2311      2321      2331      2341      2351      2361      2371      2381      2391      2401      2411      2421      2431

Chain D from PDB  Type:PROTEIN  Length:430
 aligned with SAHH_RAT | P10760 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:430
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432
            SAHH_RAT      3 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY  432
               SCOP domains d1ky5d2 D:3002-3189,D:3353-3431 S-adenosylhomocystein hydrolase                                                                                                                             d1ky5d1 D:3190-3352 S-adenosylhomocystein hydrolase                                                                                                                d1ky5d2 D:3002-3189,D:3353-3431 S-adenosylhomocystein hydrolase                 SCOP domains
               CATH domains 1ky5D01 D:3002-3191,D:3352-3403  [code=3.40.50.1480, no name defined]                                                                                                                         1ky5D02 D:3192-3351 NAD(P)-binding Rossmann-like Domain                                                                                                         1ky5D01 D:3002-3191,D:3352-3403                     ---------------------------- CATH domains
           Pfam domains (1) --AdoHcyase-1ky5D01 D:3004-3430                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (1)
           Pfam domains (2) --AdoHcyase-1ky5D02 D:3004-3430                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (2)
           Pfam domains (3) --AdoHcyase-1ky5D03 D:3004-3430                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (3)
           Pfam domains (4) --AdoHcyase-1ky5D04 D:3004-3430                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (4)
           Pfam domains (5) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AdoHcyase_NAD-1ky5D05 D:3190-3351                                                                                                                                 -------------------------------------------------------------------------------- Pfam domains (5)
           Pfam domains (6) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AdoHcyase_NAD-1ky5D06 D:3190-3351                                                                                                                                 -------------------------------------------------------------------------------- Pfam domains (6)
           Pfam domains (7) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AdoHcyase_NAD-1ky5D07 D:3190-3351                                                                                                                                 -------------------------------------------------------------------------------- Pfam domains (7)
           Pfam domains (8) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AdoHcyase_NAD-1ky5D08 D:3190-3351                                                                                                                                 -------------------------------------------------------------------------------- Pfam domains (8)
         Sec.struct. author .....ee.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...eee....hhhhhhhhhhhh.ee..ee..eeee..hhhhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhh......eee...hhhhhh...hhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh..eeeee..hhhhhhhhhh...ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhh............hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------ADOHCYASE_1    ------------------------------------------------------------------------------------------------------------------------ADOHCYASE_2      ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1---------------------------------------------------------------Exon 1.3  PDB: D:3073-3098-------------------------------------------------Exon 1.5  PDB: D:3148-3185            Exon 1.6  PDB: D:3186-3255 UniProt: 187-256                           ----------------------------Exon 1.8  PDB: D:3284-3323              Exon 1.9  PDB: D:3324-3388 UniProt: 325-389                      Exon 1.10  PDB: D:3389-3431                 Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.2  PDB: D:3009-3072 UniProt: 10-73                       -------------------------Exon 1.4  PDB: D:3098-3148 UniProt: 99-149         ----------------------------------------------------------------------------------------------------------Exon 1.7  PDB: D:3255-3284    --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                1ky5 D 3002 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIEPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY 3431
                                  3011      3021      3031      3041      3051      3061      3071      3081      3091      3101      3111      3121      3131      3141      3151      3161      3171      3181      3191      3201      3211      3221      3231      3241      3251      3261      3271      3281      3291      3301      3311      3321      3331      3341      3351      3361      3371      3381      3391      3401      3411      3421      3431

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Flavodoxin-like (1057)

Superfamily: Formate/glycerate dehydrogenase catalytic domain-like (49)

Family: S-adenosylhomocystein hydrolase (10)

Protein domain: S-adenosylhomocystein hydrolase (10)

Norway rat (Rattus norvegicus) [TaxId: 10116] (7)

1a	d1ky5a2	A:2-189,A:353-431
1b	d1ky5b2	B:1002-1189,B:1353-1431
1c	d1ky5c2	C:2002-2189,C:2353-2431
1d	d1ky5d2	D:3002-3189,D:3353-3431

Fold: NAD(P)-binding Rossmann-fold domains (1604)

Superfamily: NAD(P)-binding Rossmann-fold domains (1604)

Family: Formate/glycerate dehydrogenases, NAD-domain (49)

Protein domain: S-adenosylhomocystein hydrolase (10)

Norway rat (Rattus norvegicus) [TaxId: 10116] (7)

2a	d1ky5a1	A:190-352
2b	d1ky5b1	B:1190-1352
2c	d1ky5c1	C:2190-2352
2d	d1ky5d1	D:3190-3352

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1480, no name defined] (11)

Norway rat (Rattus norvegicus) (7)

1a	1ky5A01	A:2-191,A:352-403
1b	1ky5B01	B:1002-1191,B:1352-1403
1c	1ky5C01	C:2002-2191,C:2352-2403
1d	1ky5D01	D:3002-3191,D:3352-3403

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Norway rat (Rattus norvegicus) (18)

2a	1ky5A02	A:192-351
2b	1ky5B02	B:1192-1351
2c	1ky5C02	C:2192-2351
2d	1ky5D02	D:3192-3351

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Form_Glyc_dh (56)

Family: AdoHcyase (11)

Rattus norvegicus (Rat) (3)

1a	AdoHcyase-1ky5D01	D:3004-3430
1b	AdoHcyase-1ky5D02	D:3004-3430
1c	AdoHcyase-1ky5D03	D:3004-3430
1d	AdoHcyase-1ky5D04	D:3004-3430

Clan: NADP_Rossmann (1239)

Family: AdoHcyase_NAD (11)

Rattus norvegicus (Rat) (3)

2a	AdoHcyase_NAD-1ky5D05	D:3190-3351
2b	AdoHcyase_NAD-1ky5D06	D:3190-3351
2c	AdoHcyase_NAD-1ky5D07	D:3190-3351
2d	AdoHcyase_NAD-1ky5D08	D:3190-3351

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (SAHH_RAT | P10760)

molecular function
	GO:0051287	NAD binding	Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
	GO:0004013	adenosylhomocysteinase activity	Catalysis of the reaction: S-adenosyl-L-homocysteine + H2O = adenosine + L-homocysteine.
	GO:0098604	adenosylselenohomocysteinase activity	Catalysis of the reaction: Se-Adenosyl-L-selenohomocysteine + H2O => Adenosine + Selenohomocysteine.
	GO:0030554	adenyl nucleotide binding	Interacting selectively and non-covalently with adenyl nucleotides, any compound consisting of adenosine esterified with (ortho)phosphate.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
biological process
	GO:0019510	S-adenosylhomocysteine catabolic process	The chemical reactions and pathways resulting in the breakdown of S-adenosylhomocysteine, forming homocysteine and then methionine.
	GO:0033353	S-adenosylmethionine cycle	A cyclic series of interconversions involving S-adenosylmethionine, S-adenosyl-L-homocysteine, L-cysteine, and L-methionine. Couples utilization of the methyl group of SAM with recycling of the homocysteinyl group and regeneration of methionine.
	GO:0002439	chronic inflammatory response to antigenic stimulus	A chronic inflammatory response to an antigenic stimulus. A chronic inflammatory response persists indefinitely during days, weeks, or months in the life of an individual.
	GO:0042745	circadian sleep/wake cycle	The cycle from wakefulness through an orderly succession of sleep states and stages that occurs on an approximately 24 hour rhythm.
	GO:0071268	homocysteine biosynthetic process	The chemical reactions and pathways resulting in the formation of homocysteine, 2-amino-4-sulfanylbutanoic acid.
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
	GO:0001666	response to hypoxia	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
	GO:0007584	response to nutrient	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nutrient stimulus.
	GO:0001887	selenium compound metabolic process	The chemical reactions and pathways involving compounds that contain selenium, such as selenocysteine.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0042470	melanosome	A tissue-specific, membrane-bounded cytoplasmic organelle within which melanin pigments are synthesized and stored. Melanosomes are synthesized in melanocyte cells.
	GO:0043005	neuron projection	A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric/Biological Unit
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	1ky5
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	SAHH_RAT \| P10760
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	3.3.1.1
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	SAHH_RAT \| P10760
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UniProtKB/Swiss-Prot
	SAHH_RAT \| P10760	:	1b3r 1d4f 1k0u 1ky4 1xwf 2h5l

1d4f	1D4F CONTAINS THE COORDINATE WITHOUT NONCRYSTALLOGRAPHIC RESTRAINTS
1ky4	1KY4 CONTAINS S-ADENOSYLHOMOCYSTEINE HYDROLASE REFINED WITH NONCRYSTALLOGRAPHIC RESTRAINTS

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 8)

Exons (10, 40)

Sequences/Alignments

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SCOP Domains (2, 8)

CATH Domains (2, 8)

Pfam Domains (2, 8)

Gene Ontology (21, 21)

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