<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP05909

Description Mediator of RNA polymerase II transcription subunit 23 (Fragment)
SequenceMSVSLSDFEAKVKNLFKEHAKTGIAHFFFRPYLITSSEECEKKILISTANELMEIFTSLPQNLQESAFSIVISHRVLSNSANRIVDFFVRNVTQRQMLSIKCICEKLLTCAELNINSCGWNDTFAFFMENISLLDYKGVRDTLKRLLDIPIPVHLQVDQRKSVEAVEKLIKTICDRKNNLLPAYFVITEIIKNLPEQRCFSHWRMADCFTEIIESFRPLAQLNSVCGRTFMTPIPGHVGFYFNAFWKLEVLSLRFPLKGLLPYSQDLLNPQMRLLTHVFMHYTYRDAIAVLLGTAKPEKSRIPYFEEVITEIILELMFTAECDHSQLNPQAWRIISTQIIYLTLQQSICFTRLVKILHTKLTHYPYRYARNQLMWCLFNFLSGGMQKYSVEEFAVILDLYRLLYTGRDIFTVSGSDSSCVLMLAPTCIWIHILKKSPSMEVELPPTVNTQRKFLQEALKNKTQFNTDNYMVAVLCNAYSSTSEIFQQDLLPILLENLDNTRGHNSTQASGNFTSNATNSMPYPNGAVSEVKLRPLKLEFLDSVSVHVRMNIANSLIGTFGRFMQGKSAWPSPALVETYCRMLTYPDLEILGLKQFTSHIVLTAARHQCCEMMYICCEILNYRLFNIPSTYRVHAIVTLQQTLAFAKFQTNASLYWMLERTLLLQFQWYPHYEIFQAPFARLLNSFVAVAADGTKQSIAENEELMRIIILTLARSTVISSNSDSCFIEGVYRELLNKLPSYSWPQSTLSVFPQVFCSHYTQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQPQPHQSNVVVGSSQQPQQQQQSRFLLQQQVDEEYIKHRTFGSELSLIDYFTNTSTSTVYLCLLWRLVYDTGELPAVSMKILEVLGPRKVLVHLKSLADFLVYETNSADVNRCVDVLNRLIFKYAVVPLERFMLTMLLRDYEGNDAFYALLIVMLLVQRSEELRSAVADCVAMLPSDYWHCQDWNDKYQAYQTKHAERTWSQVHVELSRASLTPNDCPLPVYFGTRCLQMLPVVDLLLQKLVESPAACLKFLDSTLSILGPLYRFHPYPVSFLYSTFRFYEKRLVESPAIKQKLALAVHGACVPARDDHWLLSAEFVGWVSQATDRGPWVPDLNYYAALVRRLIDTFSEPRQQWSRKTDLRFVEFNNFQTHALYSICIELMSLPVGVVDVGNALVTLVTHWHSLVDKNTVMYWVNAIGLIFSALPISYMEPFYQTILTTLCSDHMNSINTDVSNKLDFEKRSKLMEDCYPARILALCHAVWLHSAPGYLQLLPQALRSTWIPHVRSEGQFLYVCHLVAPFLQRFYQERTKFTMDITTDLYQMLYNVDCEVGDWKYEDLICDFFYHVKYMYVGDSVRQDTDRIIPMLRPSLQQKLRYISFAQGEQSAGTPFSVRKGSFGEDFIPEMINPIKLLGIQMVVWLQRLPIFGETAQHFWLAVTKLGDPVMTFSLYFPALFPFFGTAALDMVIVGAFSEISNCILKWILLDDRPYWWVHTAGVSGHLSHPLKQFQWTCETGPGSPSGHAMVSASVWFNLLYNLQSDLVLGDLSGICWLLYVVFLIAVSISRTYISAHFPDQVILGIVVGICIALVTRSLVGHRRRRWSNLIAFMIALLLIALSVHEAHRFFGVDTHRSIELAAKYCHRAEWIHQSTTPLASFFRDVGVLISVAILLANKSMFTNKNNKITSKFFSTKFAQALLGVGLNQLVALIPIGRLPTVLFYELFVPENYIFWYDCHQALIVLLLTMVLDLDNFRVEKGGNVQAVRVSQQKRFQSVDLVDQVVETDQEWRRSRYLSDEWNRLKNLCSKEIGEKIKRKEPVDGNSTLPDSLTDKLQKLTVDQIRALSVSQIKQLRLLIDHEMEKSYKLVENLEAVRFKALSQIGNLVHNSVPVSENEDDNEIVRTWGELEVRKKYSQVDLGIMVDGYDSERGCSVAGSRGYFLKGPLVFLEQALIQLAMHMLFKKKYTPLYTPFFMRKEVMQEVAQLSDFDDQLYKVIGKSSEVKEEIAEEEKYLIATSEQPIAAYHRDEWISKESLPLRYVGFSTCFRQEVGSHGRDTSGIFRVHQFEKVEQFCITSPHDDASWEMLEEMISNAEMFYQTLNIPYRVVSIVSGELNNAAAKKYDLEAWFPGSGAFRELVSCSNCTDYQSRRLRIRYEFVHMLNGTMCATTRTICAILENFQEENGIAVPEALRQYMPDDYKDFIPFVKPAPKVEQAAKRGNKSATAEKSTQYVGSKLFKFFLVTTRLELQ
Length2256
PositionTail
OrganismTrichinella nelsoni
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.11
Grand average of hydropathy-0.057
Instability index43.76
Isoelectric point6.78
Molecular weight259734.88
Publications









Function






Annotated function


GO - Cellular Component
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
nucleus	GO:0005634	IEA:UniProtKB-SubCell

GO - Biological Function
ATP binding	GO:0005524	IEA:UniProtKB-KW
serine-tRNA ligase activity	GO:0004828	IEA:UniProtKB-EC

GO - Biological Process
seryl-tRNA aminoacylation	GO:0006434	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP05909
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     104.65|      14|      15|     761|     774|       1
---------------------------------------------------------------------------
  761-  774 (30.02/18.82)	QQQQQQQQQ.QQQQQ
  777-  790 (30.02/18.82)	QQQQQQQQQ.QQQQQ
  791-  805 (18.45/ 8.35)	PQPHQSNVVvGSSQQ
  806-  819 (26.16/15.32)	PQQQQQSRF.LLQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     159.69|      36|      80|     930|     965|       2
---------------------------------------------------------------------------
  930-  965 (57.45/32.53)	Y.......EGNDAFYALLIVMLLVQRSEEL.RSAVADCVAMLPS
  967- 1010 (48.48/26.33)	YwhcqdwnDKYQAYQTKHAERTWSQVHVELsRASLTPNDCPLPV
 1011- 1043 (53.76/29.98)	Y.......FGTRCLQMLPVVDLLLQK...L.VESPAACLKFLDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     237.06|      53|      81|    1573|    1625|       3
---------------------------------------------------------------------------
 1459- 1542 (57.11/44.55)	...YFPALFPffgtaalDMVIVGAFSEISNCILKWILLDDRPYW.WVHTAgvsghlshplkqfqwtcetgpgspsghA..MVSASVWFNL
 1544- 1570 (30.75/19.21)	...Y...NLQ.......SDLVLGDLSGIC................WLLYV...........................V..FLIAV.....
 1573- 1625 (86.61/72.91)	SRTYISAHFP.......DQVILGIVVGICIALVTRSLVGHRRRR.WSNLI...........................A..FMIALLLIAL
 1658- 1710 (62.59/49.82)	STTPLASFFR.......D...VGVLISVAILLANKSMFTNKNNKiTSKFF...........................StkFAQALLGVGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.72|      15|      81|     273|     287|       4
---------------------------------------------------------------------------
  273-  287 (28.85/18.36)	RLLTHVFMHYTYRDA
  355-  369 (28.86/18.37)	KILHTKLTHYPYRYA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     165.26|      43|      81|     112|     154|       5
---------------------------------------------------------------------------
   87-  110 (23.33/ 8.59)	..................FFVRNVTQRQMLSIKCICEKLLTC.....
  112-  154 (75.53/44.51)	ELNINSC..GW..NDTFAFFMENISLLDYKGVRDTLKRLLDIPIPVH
  193-  237 (66.40/38.24)	NLPEQRCfsHWrmADCFTEIIE..SFRPLAQLNSVCGRTFMTPIPGH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.41|      28|     646|    1132|    1164|       6
---------------------------------------------------------------------------
 1132- 1164 (42.45/43.63)	LIDTFSEPRQQWSRKtdlRFV..EFNNFQthALYS
 1784- 1813 (45.96/30.18)	LVDQVVETDQEWRRS...RYLsdEWNRLK..NLCS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.39|      22|     646|    1248|    1275|       7
---------------------------------------------------------------------------
 1248- 1269 (39.05/35.37)	EKRSKLMEDCYP.ARILALCHAV
 1284- 1306 (36.35/16.55)	ALRSTWIPHVRSeGQFLYVCHLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.98|      15|      40|     489|     503|      13
---------------------------------------------------------------------------
  489-  503 (26.86/17.15)	LLPILLENLDNTRGH
  532-  546 (26.12/16.45)	LRPLKLEFLDSVSVH
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP05909 with Med23 domain of Kingdom Metazoa
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