<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 MDP05996

Description Mediator of RNA polymerase II transcription subunit 23
SequenceMSVSLSDFEAKVKNLFKEHAKSGIAHFFFRPYLITSSEECEKEIVISTANELMEIFTSLPQNLQESAFSIVISHRVLSNSANKIVDFFVRNVIQRQMLSIKCICEKLLTCAELNINSCGWNDTFAFFMENISLLDYKGVRDTLKRLLDIPIPVHLQVDQRKSVEAVEKLIKTICDRKNNLLPAYFVITEIIKNLPEQRCFSHWRMADCFTEIIESFRPLAQLNSVCGRTFMTPIPGHVGFYFNAFWKLEALSLRFPLKGLLPYSQDLLNPQMRLLTHVFMHYTYRDAIAVLLGTAKPEKSRIPYFEEVITEIILELMFTAECDHSQLNPQAWRIISTQIIYLTLQQSICFTRLVKILHTKLTHYPYRYARNQLMWCLFNFLSGGMQKYSVEEFAVILDLYRLLYTGRDIFTVSGSDSSCVLMLAPTCIWIHILKKSPSMEVELPPTVNTQRKFLQEALKNKTQFNTDNYMVAVLCNAYSSTSEIFQQDLLPILLENLDNTRGHNSTQASGNFASNTTSSMPYPNGAVSEVKLRPLKLEFLDSVSVHVRMNIANSLIGTFGRFMQGKSAWPSPALVETYCRMLTYPDLEILGLKQFTSHIVLTAARHQCCEMMYICCEILNYRLFNIPSTYRVHAIVTLQQTLAFAKFQTNASLYWMLERTLLLQFQWYPHYEIFQAPFARLLNSFVAVAADGTKQSIAENEELMRIIILTLARSTVISSNSDSCFIEGVYRELLNKLPSYSWPQSTLSVFPQQQPQQPQQQQQQQQPQPQQSNVVVGSSQQPQQQQQSRFLLKQQVDEEYIKHRTFGSELSLIDYFTNTSTSTVYLCLLWRLVYDTGELPAVSMKILEVLGPRKVLVHLKSLADFLVYETNSADVNRCVDVLNRLIFKYAVVPLERFMLTMLLRDYEGNDAFYALLIVMLLVQRSEELRSAVADCVAMLPSDYWHCQDWNDKYQAYQIKHAERTWSQVYVELSRASLTPNDCPLPVYFGTRCLQMLPVVDLLLQKLVESPAACLKFLDSTLSILGPLYRFHPYPVSFLYSTFRFYEKRLVESPAIKQKLALAVHGACVPSRDDHWLLSAEFVGWVGQATDRGPWVPDLNYYGALVRRLIDTFSEPRQQWSRKTDLRFVEFNNFQTHALYSICIELMSLPVGVVDVGNALVTLVTHWHSLVDKNTLMYWVNAIGLIFSALPISYMEPFYQTILTTLCSDNMNSINTDVSNKLDFEKRSKLMEDCYPARILALCHAVWLHSTSGYLQLLPQALRSTWIPHVRSEGQFLYVCHLVAPFLQRFYQERTKFTMDITTDLYQMLYNVDCEVGNWKYEDLICDFFYHVKYMYVGDSVRQDTDRIIPMLRPSLQQKLRYISFAQGEQSAGTPFSEMINPIKLLGIQMVVWLQRLPIFGETAQHFWLAVTKLGDPVMTFSLYFPALFPFFGTAALDMVIVGAFSEISNCILKWILLDDRPYWWVHTAGVSGQLSHPLKQFQWTCETGPGSPSGHAMVSASVWFNLLYNLQSDLVLGDLCGICWLLYVVFLIAVSISRTYISAHFPDQVILGIVVGICIALVTRSLVGHRRRRWSNLIAFMIALLLIALSVHEVHRFFGVDTHRSIELAAKYCHRAEWIHLSTTPLASFFRDVGVLISVAILLANKSMFTNNNKIASKFFSTKFAQALLGVSLNQLVAFIPIGRLPTALFYAVLLPALIVLLLTMVLDLDNFRVEKGGNVQAVRVSQQKRFQSVDLVDQVVETDQEWRRSRYLSDEWNRLKNLCSKEIGEKIKRKEPVDGNSTLPDSLTDKLQKLTVDQIRALSVGQIKQLRLLIDHEMEKSYKLVENLEAVRFKALSQIGNLVHNSVPVSENEDDNEIVRTWGELEVRKKYSQVDLGIMVDGYDSERGCSVAGSRGYFLKGPLVFLEQALIQLAMHMLFKKKYTPLYTPFFMRKEVMQEVAQLSDFDDQLYKVIGKSSEVKEEIAEEEKYLIATSEQPIAAYHRDEWISKESLPLRYVGFSTCFRQEVGSHGRDTSGIFRVHQFEKVEQFCITSPHDDASWEMLEEMISNAEMFYQTLNIPYRVVSIVSGELNNAAAKKYDLEAWFPGSGAFRELVSCSNCTDYQSRRLRIRYGQTKKMMAKAEFVHMLNGTMCATTRTICAILENFQEENGIAVPEALRQYMPDDYKDFIPFVKPAPKVEQAAKRGGNKSATAEKSTQ
Length2200
PositionTail
OrganismTrichinella sp. T9
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.11
Grand average of hydropathy-0.019
Instability index42.85
Isoelectric point6.91
Molecular weight252373.08
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

>MDP05996
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.23|      22|      29|     744|     765|       1
---------------------------------------------------------------------------
  744-  765 (42.97/30.04)	QSTLSVFPQQQPQQPQQQQ...QQQ
  771-  795 (35.27/23.17)	QSNVVVGSSQQPQQQQQSRfllKQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.41|      47|      80|     892|     941|       2
---------------------------------------------------------------------------
  892-  941 (77.00/55.42)	VPLERFMLT...MLLRDYEGNDAFYALLIVMLLVQRseeLRSAVADCVAMLPS
  970- 1019 (78.41/49.13)	VELSRASLTpndCPLPVYFGTRCLQMLPVVDLLLQK...LVESPAACLKFLDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     152.86|      33|      80|    1404|    1440|       3
---------------------------------------------------------------------------
 1404- 1440 (53.93/34.39)	QHFWLAVTKLGDP....VMTFSLYFPALFPFfgtaALDMVI
 1480- 1516 (50.40/24.06)	QFQWTCETGPGSPsghaMVSASVWFNLLYNL....QSDLVL
 1521- 1550 (48.53/22.91)	GICWLLYVVFLIA....VSISRTYISAHFP.......DQVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.58|      20|      21|    1555|    1574|       4
---------------------------------------------------------------------------
 1555- 1574 (35.84/24.64)	VGICIALVTRSLVGHRRRRW
 1578- 1597 (32.74/21.83)	IAFMIALLLIALSVHEVHRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.72|      15|      80|     273|     287|       5
---------------------------------------------------------------------------
  273-  287 (28.85/18.94)	RLLTHVFMHYTYRDA
  355-  369 (28.86/18.95)	KILHTKLTHYPYRYA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.98|      38|     812|    1265|    1371|       6
---------------------------------------------------------------------------
 1094- 1131 (69.83/21.19)	WVPDLNYYGA......LVRRLIDTFSEPRQQWSR..KTDLRFVEFN
 1265- 1310 (59.14/140.59)	WIPHVRSEGQflyvchLVAPFLQRFYQERTKFTMdiTTDLYQMLYN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.13|      46|     812|    1324|    1371|       7
---------------------------------------------------------------------------
 1324- 1371 (78.97/59.25)	IC...DFFYHVKYMYVGDSVRQ....DTDRIIPMLRPSlqQKLRYISFAQGEQSA
 2141- 2193 (70.16/46.16)	ICailENFQEENGIAVPEALRQympdDYKDFIPFVKPA..PKVEQAAKRGGNKSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     134.32|      41|      82|     112|     154|       9
---------------------------------------------------------------------------
  112-  154 (70.66/49.28)	ELNINSC..GW..NDTFAFFMEniSLLDYKGVRDTLKRLLDIPIPVH
  193-  237 (63.66/38.35)	NLPEQRCfsHWrmADCFTEIIE..SFRPLAQLNSVCGRTFMTPIPGH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.87|      16|      29|     579|     595|      10
---------------------------------------------------------------------------
  579-  595 (26.75/19.85)	CRMLtYPDLEILGLKQF
  609-  624 (34.12/20.93)	CEMM.YICCEILNYRLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.40|      27|      29|      49|      77|      11
---------------------------------------------------------------------------
   49-   77 (39.31/36.16)	ANELMEIFTSlpQNLQESAFSI.VISHRVL
   81-  108 (42.09/30.41)	ANKIVDFFVR..NVIQRQMLSIkCICEKLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.20|      13|      33|    1194|    1206|      13
---------------------------------------------------------------------------
 1194- 1206 (25.37/17.74)	MEPFYQTILTTLC
 1230- 1242 (25.84/18.24)	MEDCYPARILALC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.56|      17|      26|    1927|    1943|      14
---------------------------------------------------------------------------
 1927- 1943 (30.62/18.83)	LYTPFFMRKEVMQEVAQ
 1951- 1967 (26.93/15.70)	LYKVIGKSSEVKEEIAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.46|      18|      26|     291|     313|      15
---------------------------------------------------------------------------
  291-  313 (25.93/30.97)	LLGTAKPEKS.......RIpyfeeVITEII
  316-  340 (26.52/15.50)	LMFTAECDHSqlnpqawRI.....ISTQII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.42|      25|     624|    1447|    1474|      19
---------------------------------------------------------------------------
 1447- 1474 (41.64/39.57)	ISNCILKWILLdDRPYWWVHTagVSGQL
 2049- 2073 (44.77/29.56)	ISNAEMFYQTL.NIPYRVVSI..VSGEL
---------------------------------------------------------------------------




































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 MDP05996 with Med23 domain of Kingdom Metazoa
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