4E4JA

Crystal structure of arginine deiminase from mycoplasma penetrans
Total Genus 137
50100150200250300350020406080100120140
Genus TraceResidueGenus

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
137
sequence length
399
structure length
399
Chain Sequence
GINVYSEIGELKEVLVHTPGDEIRYTAPSRLEELLFSAVLKADTAIEEHKGFVKILQNNGIKVIQLCDLVAETYELCSKEVRNSFIEQYLDEALPVLKKEIRPVVKDYLLSFPTVQMVRKMMSGILANELNIKQDNPLIIDGMPNLYFTRDPFASMGNGVSINCMKYPTRKREVIFSRFVFTNNPKYKNTPRYFDIVGNNGTIEGGDIFIYNSKTLVIGNSERTNFAAIESVAKNIQANKDCTFERIVVINVPPMPNLMHLDTWLTMLDYDKFLYSPNMMNVLKIWEIDLNVKPVKFVEKKGTLEEVLYSIIDKKPILIPIAGKGANQLDIDIETHFDGTNYLTIAPGVVVGYERNEKTQKALVEAGIKVLSFNGSQLSLGMGSARCMSMPLIRENLKK
50100150200250300350300200100
020406080100120Genus Matrix

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
AH4 (154-164)EMPTYTII'1 (209-212)TIV2 (146-149)TII2 (373-376)S1 (64-69)3H1 (74-77)TI1 (80-83)TI2 (81-84)TI4 (84-87)TI5 (85-88)AH1 (95-111)AH2 (119-129)AH3 (132-145)AH5 (167-176)TI6 (151-154)TI19 (391-394)TI10 (237-240)TI12 (240-243)TVIII1 (191-194)TI9 (201-204)3H2 (180-183)S3 (178-179)S4 (191-193)AH6 (221-236)TI8 (198-201)S5 (206-209)3H3 (258-260)TIV4 (202-205)AH9 (381-390)S6 (212-215)S7 (245-247)AH7 (279-291)TI15 (292-295)TII1 (308-311)S8 (261-265)TI14 (274-277)TI13 (265-268)S13 (335-342)TI18 (342-345)S9 (268-273)TIV8 (345-348)S16 (396-399)S11 (318-322)S10 (299-304)3H4 (314-316)TI16 (322-325)AH8 (357-365)S12 (325-328)S14 (350-356)TII3 (376-379)TI3 (83-86)S2 (115-118)TI7 (196-199)TIV3 (199-202)TVIII2 (245-248)TIV7 (248-251)TI17 (329-332)TVIII3 (333-336)S15 (370-373)TIV1 (59-62)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Mycoplasma penetrans
publication title Structural Characterization of the Enzymes Composing the Arginine Deiminase Pathway in Mycoplasma penetrans.
pubmed doi rcsb
molecule keywords Arginine deiminase
total genus 137
structure length 399
sequence length 399
chains with identical sequence B, C, D, E, F, G, H, I, J, K, L
ec nomenclature
pdb deposition date 2012-03-13

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02274 Amidinotransf Amidinotransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.3930.10 Mainly Alpha Orthogonal Bundle Pentein Arginine deiminase 4e4jA02
3.75.10.10 Alpha Beta 5-stranded Propeller L-arginine/glycine Amidinotransferase; Chain A L-arginine/glycine Amidinotransferase; Chain A 4e4jA01
3H7KA 1WD9A 2CI3A 4JDWA 2JERA 4YTGA 5AK7A 5M3QA 5HP5A 3B1UA 4N2NA 4N2GA 2DEXX 2CI1A 4N25A 3RHYA 5AK8A 4N28A 4BOFA 2ACIA 3APMA 3APNA 9JDWA 4N2DA 1JDWA 1BWDA 1WDAA 4N24A 3P8PA 1G61A 3JDWA 4N2FA 4YT9A 2CMUA 1WD8A 4N2HA 4N20A 4N2AA 4N2KA 6JDWA 4N2IA 7JDWA 3H7CX 1G62A 1ZBRA 1S9RA 2AAFA 1RXXA 2JDWA 1H70A 2A9GA 2JAIA 2C6ZA 2JDXA 4N2BA 4X8CA 4N2CA 2JAJA 3HVMA 1XKNA 1JDXA 2ABRA 1VKPA 2EWOA 5JDWA 2CI5A 4N2MA 2DW5A 2DEYX 2CI7A 2DEWX 2Q3UA 4E4JA 3I2EA 4X8GA 4N2EA 4DKTA 3I4AA 5AN9I 4YTBA 3BPBA 4N22A 1LXYA 2CI6A 3P8EA 4N26A 8JDWA 3B1TA 2CI4A 4N2LA
chains in the Genus database with same CATH superfamily
3H7KA 1WD9A 2CI3A 4JDWA 2JERA 4YTGA 5AK7A 5M3QA 5HP5A 3B1UA 4N2NA 4N2GA 2DEXX 2CI1A 4N25A 3RHYA 5AK8A 4N28A 4BOFA 2ACIA 3APMA 3APNA 9JDWA 4N2DA 1JDWA 1BWDA 1WDAA 4N24A 3P8PA 1G61A 3JDWA 4N2FA 4YT9A 2CMUA 1YNHA 1WD8A 4N2HA 4N20A 4N2AA 4N2KA 6JDWA 4N2IA 7JDWA 3H7CX 1G62A 1ZBRA 1S9RA 2AAFA 1RXXA 2JDWA 1H70A 2A9GA 2JAIA 2C6ZA 2JDXA 4N2BA 4X8CA 4N2CA 2JAJA 3HVMA 1XKNA 1JDXA 2ABRA 1VKPA 2EWOA 5JDWA 2CI5A 4N2MA 2DW5A 2DEYX 2CI7A 2DEWX 2Q3UA 4E4JA 3I2EA 4X8GA 4N2EA 4DKTA 3I4AA 5AN9I 4YTBA 1YNFA 3BPBA 4N22A 1LXYA 2CI6A 3P8EA 1YNIA 4N26A 8JDWA 3B1TA 2CI4A 4N2LA
chains in the Genus database with same CATH topology
3H7KA 1WD9A 2CI3A 4JDWA 2JERA 4YTGA 5AK7A 5M3QA 5HP5A 3B1UA 4N2NA 4N2GA 2DEXX 2CI1A 4N25A 3RHYA 5AK8A 4N28A 4BOFA 2ACIA 3APMA 3APNA 9JDWA 4N2DA 1JDWA 1BWDA 1WDAA 4N24A 3P8PA 1G61A 3JDWA 4N2FA 4YT9A 2CMUA 1WD8A 4N2HA 4N20A 4N2AA 4N2KA 6JDWA 4N2IA 7JDWA 3H7CX 1G62A 1ZBRA 1S9RA 2AAFA 1RXXA 2JDWA 1H70A 2A9GA 2JAIA 2C6ZA 2JDXA 4N2BA 4X8CA 4N2CA 2JAJA 3HVMA 1XKNA 1JDXA 2ABRA 1VKPA 2EWOA 5JDWA 2CI5A 4N2MA 2DW5A 2DEYX 2CI7A 2DEWX 2Q3UA 4E4JA 3I2EA 4X8GA 4N2EA 4DKTA 3I4AA 5AN9I 4YTBA 3BPBA 4N22A 1LXYA 2CI6A 3P8EA 4N26A 8JDWA 3B1TA 2CI4A 4N2LA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3H7K A;  1WD9 A;  2CI3 A;  4JDW A;  2JER A;  4YTG A;  5AK7 A;  5M3Q A;  5HP5 A;  3B1U A;  4N2N A;  4N2G A;  2DEX X;  2CI1 A;  4N25 A;  3RHY A;  5AK8 A;  4N28 A;  4BOF A;  2ACI A;  3APM A;  3APN A;  9JDW A;  4N2D A;  1JDW A;  1BWD A;  1WDA A;  4N24 A;  3P8P A;  1G61 A;  3JDW A;  4N2F A;  4YT9 A;  2CMU A;  1WD8 A;  4N2H A;  4N20 A;  4N2A A;  4N2K A;  6JDW A;  4N2I A;  7JDW A;  3H7C X;  1G62 A;  1ZBR A;  1S9R A;  2AAF A;  1RXX A;  2JDW A;  1H70 A;  2A9G A;  2JAI A;  2C6Z A;  2JDX A;  4N2B A;  4X8C A;  4N2C A;  2JAJ A;  3HVM A;  1XKN A;  1JDX A;  2ABR A;  1VKP A;  2EWO A;  5JDW A;  2CI5 A;  4N2M A;  2DW5 A;  2DEY X;  2CI7 A;  2DEW X;  2Q3U A;  4E4J A;  3I2E A;  4X8G A;  4N2E A;  4DKT A;  3I4A A;  5AN9 I;  4YTB A;  3BPB A;  4N22 A;  1LXY A;  2CI6 A;  3P8E A;  4N26 A;  8JDW A;  3B1T A;  2CI4 A;  4N2L A; 
#chains in the Genus database with same CATH topology
 3H7K A;  1WD9 A;  2CI3 A;  4JDW A;  2JER A;  4YTG A;  5AK7 A;  5M3Q A;  5HP5 A;  3B1U A;  4N2N A;  4N2G A;  2DEX X;  2CI1 A;  4N25 A;  3RHY A;  5AK8 A;  4N28 A;  4BOF A;  2ACI A;  3APM A;  3APN A;  9JDW A;  4N2D A;  1JDW A;  1BWD A;  1WDA A;  4N24 A;  3P8P A;  1G61 A;  3JDW A;  4N2F A;  4YT9 A;  2CMU A;  1YNH A;  1WD8 A;  4N2H A;  4N20 A;  4N2A A;  4N2K A;  6JDW A;  4N2I A;  7JDW A;  3H7C X;  1G62 A;  1ZBR A;  1S9R A;  2AAF A;  1RXX A;  2JDW A;  1H70 A;  2A9G A;  2JAI A;  2C6Z A;  2JDX A;  4N2B A;  4X8C A;  4N2C A;  2JAJ A;  3HVM A;  1XKN A;  1JDX A;  2ABR A;  1VKP A;  2EWO A;  5JDW A;  2CI5 A;  4N2M A;  2DW5 A;  2DEY X;  2CI7 A;  2DEW X;  2Q3U A;  4E4J A;  3I2E A;  4X8G A;  4N2E A;  4DKT A;  3I4A A;  5AN9 I;  4YTB A;  1YNF A;  3BPB A;  4N22 A;  1LXY A;  2CI6 A;  3P8E A;  1YNI A;  4N26 A;  8JDW A;  3B1T A;  2CI4 A;  4N2L A; 
#chains in the Genus database with same CATH homology
 3H7K A;  1WD9 A;  2CI3 A;  4JDW A;  2JER A;  4YTG A;  5AK7 A;  5M3Q A;  5HP5 A;  3B1U A;  4N2N A;  4N2G A;  2DEX X;  2CI1 A;  4N25 A;  3RHY A;  5AK8 A;  4N28 A;  4BOF A;  2ACI A;  3APM A;  3APN A;  9JDW A;  4N2D A;  1JDW A;  1BWD A;  1WDA A;  4N24 A;  3P8P A;  1G61 A;  3JDW A;  4N2F A;  4YT9 A;  2CMU A;  1WD8 A;  4N2H A;  4N20 A;  4N2A A;  4N2K A;  6JDW A;  4N2I A;  7JDW A;  3H7C X;  1G62 A;  1ZBR A;  1S9R A;  2AAF A;  1RXX A;  2JDW A;  1H70 A;  2A9G A;  2JAI A;  2C6Z A;  2JDX A;  4N2B A;  4X8C A;  4N2C A;  2JAJ A;  3HVM A;  1XKN A;  1JDX A;  2ABR A;  1VKP A;  2EWO A;  5JDW A;  2CI5 A;  4N2M A;  2DW5 A;  2DEY X;  2CI7 A;  2DEW X;  2Q3U A;  4E4J A;  3I2E A;  4X8G A;  4N2E A;  4DKT A;  3I4A A;  5AN9 I;  4YTB A;  3BPB A;  4N22 A;  1LXY A;  2CI6 A;  3P8E A;  4N26 A;  8JDW A;  3B1T A;  2CI4 A;  4N2L A; 
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