1QB2A

Crystal structure of the conserved subdomain of human protein srp54m at 2.1a resolution: evidence for the mechanism of signal peptide binding
Total Genus 38
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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
38
sequence length
106
structure length
106
Chain Sequence
QFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQRVARGSGVSTRDVQELLTQYTKFAQMV
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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 Signaling protein
molecule keywords HUMAN SIGNAL RECOGNITION PARTICLE 54 KD PROTEIN
publication title Crystal structure of the conserved subdomain of human protein SRP54M at 2.1 A resolution: evidence for the mechanism of signal peptide binding.
pubmed doi rcsb
source organism Homo sapiens
total genus 38
structure length 106
sequence length 106
chains with identical sequence B
ec nomenclature
pdb deposition date 1999-04-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A 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 1qb2A00
3LQXA 2PXTA 2PXUA 2PXQA 1QZXA 2PXFA 2PXPA 2XXAA 1DULA 2PXBA 2JQEA 2PXLA 2FFHA 5GAGi 2PXDA 1MFQC 2PXKA 3NDBB 2PXVA 5GAHi 3KL4A 1HQ1A 2PXEA 1QB2A 2V3CC 3DM5A
chains in the Genus database with same CATH superfamily
2PUAA 2XXQA 3R1FA 3SCFA 1RIOA 2HINA 2AXZA 1LMB3 2KEJA 2IVGA 4I6TA 1B0NA 3U3WA 2CROA 2IUOA 1RZSA 3QQ6A 2L8NA 3BDNA 1XWRA 3LQXA 2PXTA 2R1JL 5DRTA 3FMYA 3KJXA 1L1MA 2PIJA 3M9LA 2FFHA 1YSEA 1JH9A 1VPWA 2O38A 4WVLA 4O8BA 1CJGA 2LYQA 3OKZA 1WIZA 1ZVVA 1GT0C 1ZAYA 1R69A 1IC8A 2YBDA 3F52A 3G0TA 1QP0A 3GN5B 3GN5A 4DE8A 3A9YA 1ZZCA 2KPJA 2LCVA 4Q2JA 2PXDA 1U2ZA 1LLIA 1CQTA 2IV1A 4YG4A 2BJCA 1ZZBA 5JUWA 5K98B 2GRMA 1RZRD 2GRLA 2KZ8A 5DT2A 3LFPA 2PXFA 2PPXA 1UXDA 2PUEA 5A7LA 1ZUGA 1BDHA 2IVBA 2PUCA 4X4DA 4I6RA 2PXEA 1QP7A 4X4FA 2PUFA 2D5VA 2L49A 1PRAA 2GZUA 1LCCA 2R63A 3B7HA 1QZXA 1DW9A 4NDWA 4I8TA 4MCTA 3DNVB 1LQCA 4Z58A 3OQOA 3BS3A 1QB2A 4ER3A 3VWSA 2PXUA 5DSXA 3PXPA 2WIUB 2J7WA 3OMTA 4PU3C 4EKIA 1X2LA 2LLWA 3JXCL 3BD1A 2HCNA 1NERA 2H8RA 3A9ZA 2KEKA 2VEOA 4FN3A 4Z5HA 2PUDA 4X4IA 1ADRA 4GQMA 1BDIA 3RZZA 2PXQA 4MCXA 3CECA 2LNMA 4X4BA 3OQMA 5GAGi 2ICTA 2AXUA 3CROL 3KL4A 4YARA 3QOWA 2OFYA 1ZZ9A 2LYPA 3A9XA 2AXVA 1WETA 3ZPXA 3SCHA 4JQDA 3MLFA 4IVZA 3UFDA 2MEZA 3CLCA 3OQNA 1HF0A 2XCJA 3TEPA 4IA8A 3H5TA 3SR4A 3SCGA 3O9XA 5GAHi 4JCYA 4F8DA 1HQ1A 4PU8A 1UXCA 4Z5DA 3PE5A 2A6CA 2BNMA 2FJRA 2LYLA 4PU4C 1R63A 2EWTA 1ZPQA 2ICPA 2XI8A 4EZIA 4OB4A 4Z5CA 2XJ3A 4I6UA 2LLVA 3GZCA 1QQAA 2HSGA 2ODRD 2V3CC 3DM5A 2BNNA 4EK9A 4YG1A 2HFZA 5DRYA 1NW3A 1QP4A 3NXHA 2PXPA 1E3OC 3EUSA 1DULA 3UWPA 2PXBA 2JQEA 1QPZA 2XXPA 2LYKA 1MFQC 2PUBA 1ZS4A 1JFSA 4DE9A 4ER7A 4J1WA 4EQZA 3ZHMA 3OP9A 3GUUA 1NEQA 1ZZ6A 4EKGA 3JXDL 3ZHIA 3TRBA 1PNRA 4FBIA 2PE5A 4YBAA 2IU7A 3G7DA 2LYJA 3QOXA 4X4HA 3QFIA 1ZZ7A 4X4CA 1PERL 2LYSA 3SX0A 4OBMA 2WUSR 1RPEL 1X57A 5DTQA 4ER6A 2IVQA 3QF3A 1SQ8A 1Y7YA 2BNOA 4IWRA 2EF8A 1WH8A 5DTRA 3ZKCA 3S8QA 3IVPA 2XSDC 3G5GA 1AU7A 2MQKA 4X4GA 3FYAA 2M4HA 3GBFA 2LYRA 1DWKA 2L1PA 2PXVA 4PU7A 4JCXA 4Y42A 2AW6A 2OR1L 1PRUA 3OWQA 3GZDA 2O4AA 1OSLA 3QWGA 1QQBA 2KEIA 2JCGA 2XXAA 2PXLA 3D1NI 3NROA 3F6WA 3JXBC 4GHJA 3NDBB 1WH6A 2CSFA 2MXDA 2AWIA 1O4XA 3KZ3A 3L1PA 1EFAA 3GZDC 1RZRA 1S7EA 2O49A 2JVLA 5DTMA 3KXAA 3NZLA 3ME5A 3R09A 2EBYA 1UTXA 1JWLA 1POUA 3FYMA 1LCDA 4J1XA 4X4EA 1Y9QA 3MEJA 3HZIB 3TELA 4ER0A 2PUGA 4YG7B 3F51A 2PXKA 3VK0A 2J7UA 4HRAA 3QYXA 1PRVA 4ER5A 1ZZ8A 2B5AA 2XIUA 2AUWA 1JFTA 1OCTC 3TFLA 3LISA 4Z59A 2HCSA
chains in the Genus database with same CATH topology
3LQXA 2PXTA 2PXUA 2PXQA 1QZXA 2PXFA 2PXPA 2XXAA 1DULA 2PXBA 2JQEA 2PXLA 2FFHA 5GAGi 2PXDA 1MFQC 2PXKA 3NDBB 2PXVA 5GAHi 3KL4A 1HQ1A 2PXEA 1QB2A 2V3CC 3DM5A
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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