5GAGi

Rnc in complex with srp-sr in the closed state
Total Genus 27
Loading diagram...

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
27
sequence length
126
structure length
126
Chain Sequence
GFDLNDFLEQLRQMKNMGGXXXXXXXXXXXXXXXXXXXXXXDDKVLVRMEAIINSMTMKERAKPEIIKGSRKRRIAAGCGMQVQDVNRLLKQFDDMQRMMKKMKKGGXXXXXXXXXXXXXXXXXXX
Loading diagram...

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.

molecule tags Ribosome
molecule keywords SRP 4.5S RNA
publication title Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
pubmed doi rcsb
source organism Escherichia coli
total genus 27
structure length 126
sequence length 126
ec nomenclature
pdb deposition date 2015-11-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
i PF00448 SRP54 SRP54-type protein, GTPase domain
i PF02881 SRP54_N SRP54-type protein, helical bundle domain
i PF02978 SRP_SPB Signal peptide binding domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.260.30 Mainly Alpha Orthogonal Bundle 434 Repressor (Amino-terminal Domain) Signal recognition particle, SRP54 subunit, M-domain 5gagi00
1QB2A 1QZXA 2XXAA 3DM5A 2PXEA 5GAHi 2JQEA 2PXDA 2PXQA 1DULA 1MFQC 5GAGi 2PXUA 2FFHA 2PXLA 2PXFA 2PXVA 2PXKA 1HQ1A 3LQXA 2V3CC 3NDBB 2PXBA 2PXPA 2PXTA 3KL4A
chains in the Genus database with same CATH superfamily
3TRBA 4MCXA 4Z59A 2PUGA 4GHJA 2R1JL 1WETA 4F8DA 3D1NI 3QYXA 1IC8A 5DTMA 1UTXA 2PXLA 3EUSA 3LQXA 3TFLA 5DSXA 2IUOA 1S7EA 3F6WA 3F51A 4JQDA 4NDWA 2J7UA 1ZPQA 1QP0A 3FMYA 2KPJA 3ZHMA 2PIJA 3KXAA 1X2LA 2CSFA 1LCCA 4YARA 2GRLA 1RZRA 3GUUA 2PXBA 4EK9A 1SQ8A 2CROA 1QB2A 3JXDL 2KEKA 2OR1L 2IVBA 1RPEL 1O4XA 5DTRA 2B5AA 3QF3A 3L1PA 1OCTC 4MCTA 2JCGA 4Q2JA 2XCJA 2ICPA 2AXZA 2PUCA 4ER0A 2XIUA 1U2ZA 2MXDA 3OWQA 4I8TA 1QZXA 4FBIA 1DWKA 2BNMA 3JXBC 2JQEA 4X4FA 2HINA 1DW9A 1NERA 1MFQC 2AXVA 2LCVA 3QFIA 4Z58A 3G0TA 4OB4A 4X4DA 2R63A 1PERL 2PXPA 2AXUA 1JFSA 3HZIB 4EKGA 1QP4A 2L49A 3QOWA 2LYQA 2D5VA 2MQKA 3FYAA 2PXDA 5JUWA 3CECA 2WUSR 5DRTA 4I6RA 1YSEA 2XXPA 2PXFA 3ZHIA 1AU7A 2PPXA 4ER7A 1R63A 2IU7A 3R1FA 4PU4C 2LNMA 3GZCA 1NW3A 2LYJA 2FFHA 3BS3A 3DNVB 3QQ6A 1PRVA 3O9XA 4EKIA 1VPWA 2LYLA 1X57A 3NDBB 3KL4A 3U3WA 1LQCA 4Y42A 2L1PA 3CLCA 2LLVA 1RZSA 3GN5B 3GZDC 3SCHA 2PUFA 1GT0C 3OQOA 1QPZA 5GAGi 2BNOA 2M4HA 1NEQA 2HSGA 2V3CC 4J1WA 2J7WA 3JXCL 1BDHA 1PRAA 5DRYA 3NXHA 5A7LA 4PU3C 2L8NA 1HF0A 5K98B 3NZLA 2PXKA 3SX0A 2LLWA 3NROA 1ADRA 4IWRA 1JWLA 2AWIA 3CROL 1R69A 4X4EA 3ZPXA 1RIOA 2XXQA 2VEOA 2IV1A 3G5GA 3G7DA 1POUA 4YG7B 2KEIA 1ZS4A 3IVPA 3BDNA 4J1XA 2O38A 1ZZ9A 1PRUA 4FN3A 3OQMA 1ZAYA 1WH8A 5GAHi 2WIUB 4YG1A 1LMB3 2PUBA 3R09A 2XSDC 4Z5HA 3QWGA 1BDIA 1HQ1A 4YG4A 1ZZCA 3QOXA 3ZKCA 3SCGA 3PXPA 2AW6A 4ER5A 4Z5DA 2HCSA 3OKZA 2HFZA 2XJ3A 4X4CA 2XI8A 2KZ8A 4EQZA 1PNRA 1Y9QA 1QP7A 1RZRD 1DULA 3SCFA 4Z5CA 3A9XA 1QQBA 4O8BA 2O49A 3SR4A 5DT2A 4ER6A 4X4GA 3TEPA 2AUWA 3VK0A 3VWSA 4I6UA 3UFDA 3DM5A 2LYRA 1CJGA 3A9ZA 3GZDA 1EFAA 4I6TA 2H8RA 3TELA 2GRMA 2GZUA 4X4IA 3MLFA 4PU7A 2EBYA 1L1MA 2LYSA 3F52A 3KJXA 2EF8A 2PXTA 2YBDA 1JFTA 3ME5A 3A9YA 1XWRA 1UXCA 1QQAA 2HCNA 3LFPA 3H5TA 4IA8A 3GN5A 4WVLA 2PXUA 2A6CA 1ZVVA 1ZZ7A 4OBMA 2MEZA 3RZZA 1UXDA 1ZZBA 4GQMA 3OQNA 3UWPA 1B0NA 3OP9A 2PUDA 2PUEA 2IVQA 4DE9A 1E3OC 2KEJA 2ICTA 1Y7YA 2PUAA 1OSLA 4ER3A 3OMTA 2O4AA 2BNNA 2ODRD 4X4BA 3BD1A 5DTQA 4IVZA 4HRAA 2XXAA 2OFYA 1WIZA 3KZ3A 2LYPA 3PE5A 4PU8A 1CQTA 2PE5A 2BJCA 4EZIA 2EWTA 1ZZ6A 2FJRA 1LLIA 3MEJA 2PXEA 4DE8A 4JCYA 1JH9A 2LYKA 1ZZ8A 3GBFA 3B7HA 1LCDA 2PXQA 3M9LA 2IVGA 2JVLA 2PXVA 1WH6A 1ZUGA 3FYMA 4YBAA 3S8QA 3LISA 4JCXA 4X4HA
chains in the Genus database with same CATH topology
1QB2A 1QZXA 2XXAA 3DM5A 2PXEA 5GAHi 2JQEA 2PXDA 2PXQA 1DULA 1MFQC 5GAGi 2PXUA 2FFHA 2PXLA 2PXFA 2PXVA 2PXKA 1HQ1A 3LQXA 2V3CC 3NDBB 2PXBA 2PXPA 2PXTA 3KL4A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1QB2 A;  1QZX A;  2XXA A;  3DM5 A;  2PXE A;  5GAH i;  2JQE A;  2PXD A;  2PXQ A;  1DUL A;  1MFQ C;  5GAG i;  2PXU A;  2FFH A;  2PXL A;  2PXF A;  2PXV A;  2PXK A;  1HQ1 A;  3LQX A;  2V3C C;  3NDB B;  2PXB A;  2PXP A;  2PXT A;  3KL4 A; 
#chains in the Genus database with same CATH topology
 3TRB A;  4MCX A;  4Z59 A;  2PUG A;  4GHJ A;  2R1J L;  1WET A;  4F8D A;  3D1N I;  3QYX A;  1IC8 A;  5DTM A;  1UTX A;  2PXL A;  3EUS A;  3LQX A;  3TFL A;  5DSX A;  2IUO A;  1S7E A;  3F6W A;  3F51 A;  4JQD A;  4NDW A;  2J7U A;  1ZPQ A;  1QP0 A;  3FMY A;  2KPJ A;  3ZHM A;  2PIJ A;  3KXA A;  1X2L A;  2CSF A;  1LCC A;  4YAR A;  2GRL A;  1RZR A;  3GUU A;  2PXB A;  4EK9 A;  1SQ8 A;  2CRO A;  1QB2 A;  3JXD L;  2KEK A;  2OR1 L;  2IVB A;  1RPE L;  1O4X A;  5DTR A;  2B5A A;  3QF3 A;  3L1P A;  1OCT C;  4MCT A;  2JCG A;  4Q2J A;  2XCJ A;  2ICP A;  2AXZ A;  2PUC A;  4ER0 A;  2XIU A;  1U2Z A;  2MXD A;  3OWQ A;  4I8T A;  1QZX A;  4FBI A;  1DWK A;  2BNM A;  3JXB C;  2JQE A;  4X4F A;  2HIN A;  1DW9 A;  1NER A;  1MFQ C;  2AXV A;  2LCV A;  3QFI A;  4Z58 A;  3G0T A;  4OB4 A;  4X4D A;  2R63 A;  1PER L;  2PXP A;  2AXU A;  1JFS A;  3HZI B;  4EKG A;  1QP4 A;  2L49 A;  3QOW A;  2LYQ A;  2D5V A;  2MQK A;  3FYA A;  2PXD A;  5JUW A;  3CEC A;  2WUS R;  5DRT A;  4I6R A;  1YSE A;  2XXP A;  2PXF A;  3ZHI A;  1AU7 A;  2PPX A;  4ER7 A;  1R63 A;  2IU7 A;  3R1F A;  4PU4 C;  2LNM A;  3GZC A;  1NW3 A;  2LYJ A;  2FFH A;  3BS3 A;  3DNV B;  3QQ6 A;  1PRV A;  3O9X A;  4EKI A;  1VPW A;  2LYL A;  1X57 A;  3NDB B;  3KL4 A;  3U3W A;  1LQC A;  4Y42 A;  2L1P A;  3CLC A;  2LLV A;  1RZS A;  3GN5 B;  3GZD C;  3SCH A;  2PUF A;  1GT0 C;  3OQO A;  1QPZ A;  5GAG i;  2BNO A;  2M4H A;  1NEQ A;  2HSG A;  2V3C C;  4J1W A;  2J7W A;  3JXC L;  1BDH A;  1PRA A;  5DRY A;  3NXH A;  5A7L A;  4PU3 C;  2L8N A;  1HF0 A;  5K98 B;  3NZL A;  2PXK A;  3SX0 A;  2LLW A;  3NRO A;  1ADR A;  4IWR A;  1JWL A;  2AWI A;  3CRO L;  1R69 A;  4X4E A;  3ZPX A;  1RIO A;  2XXQ A;  2VEO A;  2IV1 A;  3G5G A;  3G7D A;  1POU A;  4YG7 B;  2KEI A;  1ZS4 A;  3IVP A;  3BDN A;  4J1X A;  2O38 A;  1ZZ9 A;  1PRU A;  4FN3 A;  3OQM A;  1ZAY A;  1WH8 A;  5GAH i;  2WIU B;  4YG1 A;  1LMB 3;  2PUB A;  3R09 A;  2XSD C;  4Z5H A;  3QWG A;  1BDI A;  1HQ1 A;  4YG4 A;  1ZZC A;  3QOX A;  3ZKC A;  3SCG A;  3PXP A;  2AW6 A;  4ER5 A;  4Z5D A;  2HCS A;  3OKZ A;  2HFZ A;  2XJ3 A;  4X4C A;  2XI8 A;  2KZ8 A;  4EQZ A;  1PNR A;  1Y9Q A;  1QP7 A;  1RZR D;  1DUL A;  3SCF A;  4Z5C A;  3A9X A;  1QQB A;  4O8B A;  2O49 A;  3SR4 A;  5DT2 A;  4ER6 A;  4X4G A;  3TEP A;  2AUW A;  3VK0 A;  3VWS A;  4I6U A;  3UFD A;  3DM5 A;  2LYR A;  1CJG A;  3A9Z A;  3GZD A;  1EFA A;  4I6T A;  2H8R A;  3TEL A;  2GRM A;  2GZU A;  4X4I A;  3MLF A;  4PU7 A;  2EBY A;  1L1M A;  2LYS A;  3F52 A;  3KJX A;  2EF8 A;  2PXT A;  2YBD A;  1JFT A;  3ME5 A;  3A9Y A;  1XWR A;  1UXC A;  1QQA A;  2HCN A;  3LFP A;  3H5T A;  4IA8 A;  3GN5 A;  4WVL A;  2PXU A;  2A6C A;  1ZVV A;  1ZZ7 A;  4OBM A;  2MEZ A;  3RZZ A;  1UXD A;  1ZZB A;  4GQM A;  3OQN A;  3UWP A;  1B0N A;  3OP9 A;  2PUD A;  2PUE A;  2IVQ A;  4DE9 A;  1E3O C;  2KEJ A;  2ICT A;  1Y7Y A;  2PUA A;  1OSL A;  4ER3 A;  3OMT A;  2O4A A;  2BNN A;  2ODR D;  4X4B A;  3BD1 A;  5DTQ A;  4IVZ A;  4HRA A;  2XXA A;  2OFY A;  1WIZ A;  3KZ3 A;  2LYP A;  3PE5 A;  4PU8 A;  1CQT A;  2PE5 A;  2BJC A;  4EZI A;  2EWT A;  1ZZ6 A;  2FJR A;  1LLI A;  3MEJ A;  2PXE A;  4DE8 A;  4JCY A;  1JH9 A;  2LYK A;  1ZZ8 A;  3GBF A;  3B7H A;  1LCD A;  2PXQ A;  3M9L A;  2IVG A;  2JVL A;  2PXV A;  1WH6 A;  1ZUG A;  3FYM A;  4YBA A;  3S8Q A;  3LIS A;  4JCX A;  4X4H A; 
#chains in the Genus database with same CATH homology
 1QB2 A;  1QZX A;  2XXA A;  3DM5 A;  2PXE A;  5GAH i;  2JQE A;  2PXD A;  2PXQ A;  1DUL A;  1MFQ C;  5GAG i;  2PXU A;  2FFH A;  2PXL A;  2PXF A;  2PXV A;  2PXK A;  1HQ1 A;  3LQX A;  2V3C C;  3NDB B;  2PXB A;  2PXP A;  2PXT A;  3KL4 A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...