5MLC3

Cryo-em structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions
Total Genus 6

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
6
sequence length
60
structure length
60
Chain Sequence
DVRVKVILECTGCVRKSVNKGSRGVSRYITQKNRHNTPSRLELRKFCPYCYKHTIHGEIK

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
EMPTYTIV1 (6-9)S1 (8-13)TVIII1 (15-18)TIV2 (16-19)TIV5 (53-56)TVIII2 (40-43)TI2 (52-55)S2 (33-38)Updating...
connected with : NaN
molecule tags Ribosome
publication title Cryo-EM structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions.
pubmed doi rcsb
molecule keywords 23S ribosomal RNA, chloroplastic
total genus 6
structure length 60
sequence length 60
ec nomenclature
pdb deposition date 2016-12-06

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
3 PF00471 Ribosomal_L33 Ribosomal protein L33
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.20.28.120 Mainly Beta Single Sheet Rubrerythrin, domain 2 Rubrerythrin, domain 2 5mlc300
5GAGc 5DM61 5MLC3 5DM71 5JVH1 5GADc 4WFN1 5GAEc 4UY81 4V196 5H1Sc 3PIO1 3PIP1 5GAHc 5JVG1 4U671 3J7Z1 3J7Y1
chains in the Genus database with same CATH superfamily
4UY81 3MQKB 1SMUA 1YUXA 5IP9L 2E2JL 3J7Z1 5C3EL 3GTML 3LWPB 3H3VM 1NXEA 2XJTA 2NVQL 3MPSA 1QQTA 2JI1A 2A6ED 4XGHA 2LCQA 3WWLA 3S15L 4C2M1 3HJWB 4POFA 3KYUA 2XJUA 2JI2A 1IW7D 5C4JL 4AHZA 2R93L 3K35A 3H9CA 5MGNA 4C3HL 1DVBA 3QQCE 4U671 3PZAA 1S2ZA 2E2IL 1CADA 2NVYL 2PVXA 2RFKB 1LKPA 1I6HL 2M6PA 5IYBL 3LPEB 3LWOB 3RZ6A 1VCXA 3P2AA 3PO2L 1R0JA 5GAHc 3KYYA 1YUZA 1CAAA 4AI0A 3HOVL 1LKMA 1R0IA 3PIP1 2APOB 3H9BA 4BBSL 2JA7L 3HOWL 3GTKL 2PVEA 2ERJA 1IU5A 1K83L 2L0ZA 5JVG1 4ME3A 3RZOL 2Y0SP 3S14L 1YV1A 1TWFL 3SS2A 2E2HL 5EIOC 1B2JA 4A3GL 4AYBP 3GTJL 5MFPA 4AI1A 2M4YA 3JR7A 2AYJA 5C4XL 2HR5A 1QCVA 2NVTL 5AN9H 4AHWA 1FHHA 1E8JA 8RXNA 3RZDL 3GTGL 4E6YA 2JA6L 1YK5A 2AQCA 5AI3A 4AHYA 1RYTA 3HKZP 4ZN1B 3HOUL 1R0HA 4RXNA 3VPBE 1I3QL 3ZG6A 1SFOL 1S30A 6RXNA 4C3JL 2YU9L 1TWCL 1DX8A 3GTQL 4AR5A 2H12A 1NNQA 3RZTA 4K9FA 4A3BL 2A68D 3P8BA 3J7Y1 2Z3RB 2ERSA 3S16L 2WAQP 2CR8A 3S1QL 2C6AA 3CQZL 4Y52L 1F4LA 3S17L 1BRFA 2RDVA 1WCML 3LWVB 2HVYC 3GTPL 4AR4A 2M4VA 4B8CD 3M4OL 2Z3QB 4A3JL 1Y1VL 4BY7L 2V0EA 1SMMA 1TWHL 2PMZP 2R7ZL 4JADA 1QYBA 2KKDA 4GS7D 1Y1WL 2JA5L 3H97A 2NVXL 2GMGA 1JYBA 4LHLA 1R0GA 1NXGA 2B63L 4A3DL 3K7AL 4Y7NL 2ZIXA 4AI3A 5EINC 5AI2A 4A3CL 1VZGA 1RDVA 4QIWP 2R92L 1T9PA 1BQ9A 1ODHA 4A3ML 5MF6A 3PIO1 3FDJA 3WWNB 4V196 1RYQA 4LHNA 1R0FA 5MFZA 1R9TL 1TWGL 2V3BB 2PYAA 3FKIL 1VZHA 5DM61 3HOXL 1H7VA 1WJVA 1PFUA 3QVDA 1Z92B 3PKJA 1PZXA 2XJPA 2A69D 2XJQA 5H1Sc 4AHXA 3PKIA 2EY4E 4C3IL 4BY1L 4AR6A 1IROA 3HOYL 1IU6A 1TWAL 3PWFA 4AR3A 3PO3L 1VZIA 2K2DA 4JAEA 5IYCL 4BXXL 1SMWA 2J9UB 2QL0A 2CKCA 3NFPI 5M3FL 4JAGA 5MLC3 1FHMA 5GADc 5M3ML 3A44A 1OWBA 5M5XL 1T9OA 4A3KL 3I4NL 3B0AB 2PPTA 4JAFA 4G6BA 5FLML 4TVMA 1BFYA 2C6BA 4TPUA 5FJ8L 2A6HD 2JI3A 1RDGA 3KYVA 1C09A 3IU3I 2AUSB 3S2HL 4A3EL 1OWCA 1RWDA 5IY0A 5K2ME 5IP7L 4A93L 2XJSA 2XJVA 3M3YL 1B13A 2KN9A 2VUML 3S1ML 2CKAA 1T9QA 2MS3A 2DSXA 5GAEc 1IRNA 2BE5D 4BBRL 1ZRPA 5RXNA 4AI2A 4POGA 3PL5A 1PFVA 3RYGA 4A3IL 3I4ML 3KYWA 3S2DL 3H0GL 1BE7A 3KYXA 5C44L 4X6AL 2B5ID 3S1RL 3HOZL 1PFYA 2VL6A 4ZN3B 1I50L 5DM71 2V0FA 2O5JD 5M5YL 2PSMC 1B2OA 4XXBB 2WB1P 3HAXC 1BQ8A 5GAGc 1PFWA 3LWQB 3H99A 5M5WL 3S1NL 2NYDA 4A3FL 3HJYB 3B08B 1RB9A 2JA8L 3GTOL 1LKOA 1S24A 4YWLA 3LNLA 2XJRA 3LWRB 1LTLA 3GTLL 1YK4A 2M6OA 1P7PA 5JVH1 4WFN1 3MSUA 4YWMA 4A3LL 7RXNA 1B71A 5IYDL
chains in the Genus database with same CATH topology
2GMGA 1RDGA 1JYBA 5MFPA 3KYVA 4UY81 4LHLA 1SMUA 1C09A 1NXGA 1YUXA 3IU3I 1R0GA 4AI1A 2M4YA 2AYJA 3J7Z1 2ZIXA 4AI3A 2HR5A 1QCVA 5EINC 1OWCA 1RWDA 5AI2A 5IY0A 4AHWA 1NXEA 5K2ME 5AN9H 1FHHA 2XJTA 1E8JA 2XJSA 3MPSA 1VZGA 1RDVA 8RXNA 2XJVA 1B13A 2KN9A 1T9PA 1BQ9A 2JI1A 2A6ED 4E6YA 4XGHA 1ODHA 5MF6A 2CKAA 3PIO1 2LCQA 1T9QA 3WWLA 2MS3A 3WWNB 4V196 1YK5A 2DSXA 5GAEc 1IRNA 1RYQA 4POFA 4LHNA 3KYUA 2BE5D 2XJUA 5AI3A 1R0FA 4AHYA 1ZRPA 5MFZA 5RXNA 2JI2A 1IW7D 2PYAA 2V3BB 4AI2A 1VZHA 4AHZA 4POGA 1RYTA 5DM61 3K35A 3RYGA 4ZN1B 5MGNA 1H7VA 1WJVA 4RXNA 1DVBA 3QQCE 1R0HA 3VPBE 3ZG6A 3KYWA 4U671 3PZAA 1S2ZA 3QVDA 1Z92B 1CADA 1S30A 6RXNA 1BE7A 2PVXA 3KYXA 2B5ID 1LKPA 3PKJA 2XJPA 2A69D 2M6PA 2XJQA 5H1Sc 3LPEB 4AHXA 3RZ6A 1VCXA 3P2AA 3PKIA 2VL6A 1DX8A 4ZN3B 5DM71 1R0JA 2V0FA 5GAHc 3KYYA 4AR5A 2O5JD 2H12A 2PSMC 1YUZA 1NNQA 1B2OA 4XXBB 4AR6A 1IROA 3RZTA 1CAAA 4K9FA 2A68D 3P8BA 1BQ8A 1IU6A 2Z3RB 3PWFA 4AI0A 2ERSA 4AR3A 5GAGc 3J7Y1 2CR8A 1LKMA 2C6AA 1R0IA 3PIP1 1BRFA 2NYDA 1VZIA 2RDVA 2K2DA 4JAEA 3B08B 1RB9A 1SMWA 2J9UB 2ERJA 2PVEA 2QL0A 4AR4A 1IU5A 2L0ZA 5JVG1 2CKCA 3NFPI 4ME3A 4JAGA 2M4VA 4B8CD 5MLC3 1FHMA 5GADc 2Z3QB 3A44A 1LKOA 1S24A 4YWLA 3LNLA 1OWBA 2XJRA 1YV1A 1LTLA 1T9OA 1YK4A 3B0AB 2PPTA 2V0EA 2M6OA 1SMMA 4G6BA 4JAFA 5JVH1 4WFN1 3MSUA 4JADA 4TVMA 1QYBA 2KKDA 1BFYA 2C6BA 4GS7D 4TPUA 3SS2A 5EIOC 4YWMA 1B2JA 2A6HD 2JI3A 7RXNA 1B71A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5GAG c;  5DM6 1;  5MLC 3;  5DM7 1;  5JVH 1;  5GAD c;  4WFN 1;  5GAE c;  4UY8 1;  4V19 6;  5H1S c;  3PIO 1;  3PIP 1;  5GAH c;  5JVG 1;  4U67 1;  3J7Z 1;  3J7Y 1; 
#chains in the Genus database with same CATH topology
 4UY8 1;  3MQK B;  1SMU A;  1YUX A;  5IP9 L;  2E2J L;  3J7Z 1;  5C3E L;  3GTM L;  3LWP B;  3H3V M;  1NXE A;  2XJT A;  2NVQ L;  3MPS A;  1QQT A;  2JI1 A;  2A6E D;  4XGH A;  2LCQ A;  3WWL A;  3S15 L;  4C2M 1;  3HJW B;  4POF A;  3KYU A;  2XJU A;  2JI2 A;  1IW7 D;  5C4J L;  4AHZ A;  2R93 L;  3K35 A;  3H9C A;  5MGN A;  4C3H L;  1DVB A;  3QQC E;  4U67 1;  3PZA A;  1S2Z A;  2E2I L;  1CAD A;  2NVY L;  2PVX A;  2RFK B;  1LKP A;  1I6H L;  2M6P A;  5IYB L;  3LPE B;  3LWO B;  3RZ6 A;  1VCX A;  3P2A A;  3PO2 L;  1R0J A;  5GAH c;  3KYY A;  1YUZ A;  1CAA A;  4AI0 A;  3HOV L;  1LKM A;  1R0I A;  3PIP 1;  2APO B;  3H9B A;  4BBS L;  2JA7 L;  3HOW L;  3GTK L;  2PVE A;  2ERJ A;  1IU5 A;  1K83 L;  2L0Z A;  5JVG 1;  4ME3 A;  3RZO L;  2Y0S P;  3S14 L;  1YV1 A;  1TWF L;  3SS2 A;  2E2H L;  5EIO C;  1B2J A;  4A3G L;  4AYB P;  3GTJ L;  5MFP A;  4AI1 A;  2M4Y A;  3JR7 A;  2AYJ A;  5C4X L;  2HR5 A;  1QCV A;  2NVT L;  5AN9 H;  4AHW A;  1FHH A;  1E8J A;  8RXN A;  3RZD L;  3GTG L;  4E6Y A;  2JA6 L;  1YK5 A;  2AQC A;  5AI3 A;  4AHY A;  1RYT A;  3HKZ P;  4ZN1 B;  3HOU L;  1R0H A;  4RXN A;  3VPB E;  1I3Q L;  3ZG6 A;  1SFO L;  1S30 A;  6RXN A;  4C3J L;  2YU9 L;  1TWC L;  1DX8 A;  3GTQ L;  4AR5 A;  2H12 A;  1NNQ A;  3RZT A;  4K9F A;  4A3B L;  2A68 D;  3P8B A;  3J7Y 1;  2Z3R B;  2ERS A;  3S16 L;  2WAQ P;  2CR8 A;  3S1Q L;  2C6A A;  3CQZ L;  4Y52 L;  1F4L A;  3S17 L;  1BRF A;  2RDV A;  1WCM L;  3LWV B;  2HVY C;  3GTP L;  4AR4 A;  2M4V A;  4B8C D;  3M4O L;  2Z3Q B;  4A3J L;  1Y1V L;  4BY7 L;  2V0E A;  1SMM A;  1TWH L;  2PMZ P;  2R7Z L;  4JAD A;  1QYB A;  2KKD A;  4GS7 D;  1Y1W L;  2JA5 L;  3H97 A;  2NVX L;  2GMG A;  1JYB A;  4LHL A;  1R0G A;  1NXG A;  2B63 L;  4A3D L;  3K7A L;  4Y7N L;  2ZIX A;  4AI3 A;  5EIN C;  5AI2 A;  4A3C L;  1VZG A;  1RDV A;  4QIW P;  2R92 L;  1T9P A;  1BQ9 A;  1ODH A;  4A3M L;  5MF6 A;  3PIO 1;  3FDJ A;  3WWN B;  4V19 6;  1RYQ A;  4LHN A;  1R0F A;  5MFZ A;  1R9T L;  1TWG L;  2V3B B;  2PYA A;  3FKI L;  1VZH A;  5DM6 1;  3HOX L;  1H7V A;  1WJV A;  1PFU A;  3QVD A;  1Z92 B;  3PKJ A;  1PZX A;  2XJP A;  2A69 D;  2XJQ A;  5H1S c;  4AHX A;  3PKI A;  2EY4 E;  4C3I L;  4BY1 L;  4AR6 A;  1IRO A;  3HOY L;  1IU6 A;  1TWA L;  3PWF A;  4AR3 A;  3PO3 L;  1VZI A;  2K2D A;  4JAE A;  5IYC L;  4BXX L;  1SMW A;  2J9U B;  2QL0 A;  2CKC A;  3NFP I;  5M3F L;  4JAG A;  5MLC 3;  1FHM A;  5GAD c;  5M3M L;  3A44 A;  1OWB A;  5M5X L;  1T9O A;  4A3K L;  3I4N L;  3B0A B;  2PPT A;  4JAF A;  4G6B A;  5FLM L;  4TVM A;  1BFY A;  2C6B A;  4TPU A;  5FJ8 L;  2A6H D;  2JI3 A;  1RDG A;  3KYV A;  1C09 A;  3IU3 I;  2AUS B;  3S2H L;  4A3E L;  1OWC A;  1RWD A;  5IY0 A;  5K2M E;  5IP7 L;  4A93 L;  2XJS A;  2XJV A;  3M3Y L;  1B13 A;  2KN9 A;  2VUM L;  3S1M L;  2CKA A;  1T9Q A;  2MS3 A;  2DSX A;  5GAE c;  1IRN A;  2BE5 D;  4BBR L;  1ZRP A;  5RXN A;  4AI2 A;  4POG A;  3PL5 A;  1PFV A;  3RYG A;  4A3I L;  3I4M L;  3KYW A;  3S2D L;  3H0G L;  1BE7 A;  3KYX A;  5C44 L;  4X6A L;  2B5I D;  3S1R L;  3HOZ L;  1PFY A;  2VL6 A;  4ZN3 B;  1I50 L;  5DM7 1;  2V0F A;  2O5J D;  5M5Y L;  2PSM C;  1B2O A;  4XXB B;  2WB1 P;  3HAX C;  1BQ8 A;  5GAG c;  1PFW A;  3LWQ B;  3H99 A;  5M5W L;  3S1N L;  2NYD A;  4A3F L;  3HJY B;  3B08 B;  1RB9 A;  2JA8 L;  3GTO L;  1LKO A;  1S24 A;  4YWL A;  3LNL A;  2XJR A;  3LWR B;  1LTL A;  3GTL L;  1YK4 A;  2M6O A;  1P7P A;  5JVH 1;  4WFN 1;  3MSU A;  4YWM A;  4A3L L;  7RXN A;  1B71 A;  5IYD L; 
#chains in the Genus database with same CATH homology
 2GMG A;  1RDG A;  1JYB A;  5MFP A;  3KYV A;  4UY8 1;  4LHL A;  1SMU A;  1C09 A;  1NXG A;  1YUX A;  3IU3 I;  1R0G A;  4AI1 A;  2M4Y A;  2AYJ A;  3J7Z 1;  2ZIX A;  4AI3 A;  2HR5 A;  1QCV A;  5EIN C;  1OWC A;  1RWD A;  5AI2 A;  5IY0 A;  4AHW A;  1NXE A;  5K2M E;  5AN9 H;  1FHH A;  2XJT A;  1E8J A;  2XJS A;  3MPS A;  1VZG A;  1RDV A;  8RXN A;  2XJV A;  1B13 A;  2KN9 A;  1T9P A;  1BQ9 A;  2JI1 A;  2A6E D;  4E6Y A;  4XGH A;  1ODH A;  5MF6 A;  2CKA A;  3PIO 1;  2LCQ A;  1T9Q A;  3WWL A;  2MS3 A;  3WWN B;  4V19 6;  1YK5 A;  2DSX A;  5GAE c;  1IRN A;  1RYQ A;  4POF A;  4LHN A;  3KYU A;  2BE5 D;  2XJU A;  5AI3 A;  1R0F A;  4AHY A;  1ZRP A;  5MFZ A;  5RXN A;  2JI2 A;  1IW7 D;  2PYA A;  2V3B B;  4AI2 A;  1VZH A;  4AHZ A;  4POG A;  1RYT A;  5DM6 1;  3K35 A;  3RYG A;  4ZN1 B;  5MGN A;  1H7V A;  1WJV A;  4RXN A;  1DVB A;  3QQC E;  1R0H A;  3VPB E;  3ZG6 A;  3KYW A;  4U67 1;  3PZA A;  1S2Z A;  3QVD A;  1Z92 B;  1CAD A;  1S30 A;  6RXN A;  1BE7 A;  2PVX A;  3KYX A;  2B5I D;  1LKP A;  3PKJ A;  2XJP A;  2A69 D;  2M6P A;  2XJQ A;  5H1S c;  3LPE B;  4AHX A;  3RZ6 A;  1VCX A;  3P2A A;  3PKI A;  2VL6 A;  1DX8 A;  4ZN3 B;  5DM7 1;  1R0J A;  2V0F A;  5GAH c;  3KYY A;  4AR5 A;  2O5J D;  2H12 A;  2PSM C;  1YUZ A;  1NNQ A;  1B2O A;  4XXB B;  4AR6 A;  1IRO A;  3RZT A;  1CAA A;  4K9F A;  2A68 D;  3P8B A;  1BQ8 A;  1IU6 A;  2Z3R B;  3PWF A;  4AI0 A;  2ERS A;  4AR3 A;  5GAG c;  3J7Y 1;  2CR8 A;  1LKM A;  2C6A A;  1R0I A;  3PIP 1;  1BRF A;  2NYD A;  1VZI A;  2RDV A;  2K2D A;  4JAE A;  3B08 B;  1RB9 A;  1SMW A;  2J9U B;  2ERJ A;  2PVE A;  2QL0 A;  4AR4 A;  1IU5 A;  2L0Z A;  5JVG 1;  2CKC A;  3NFP I;  4ME3 A;  4JAG A;  2M4V A;  4B8C D;  5MLC 3;  1FHM A;  5GAD c;  2Z3Q B;  3A44 A;  1LKO A;  1S24 A;  4YWL A;  3LNL A;  1OWB A;  2XJR A;  1YV1 A;  1LTL A;  1T9O A;  1YK4 A;  3B0A B;  2PPT A;  2V0E A;  2M6O A;  1SMM A;  4G6B A;  4JAF A;  5JVH 1;  4WFN 1;  3MSU A;  4JAD A;  4TVM A;  1QYB A;  2KKD A;  1BFY A;  2C6B A;  4GS7 D;  4TPU A;  3SS2 A;  5EIO C;  4YWM A;  1B2J A;  2A6H D;  2JI3 A;  7RXN A;  1B71 A; 
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