<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 MDP06183

Description Mediator of RNA polymerase II transcription subunit 23 (Fragment)
SequenceMSVSLSDFEAKVKNLFKEHAKSGNAHFFFRPYLITSSEECEKEIVISTANELMEIFTSLPQNLQESAFSIVISHRVLSNSANRIVDFFVRNVTQRQMLSIKCICEKLLTCAELNINSCGWNDTFAFFVENISLLDYKGVRDTLKRLLDIPIPVHLQVDQRKSVEAVEKLIKTICDRKNNLLPAYFVITEIIKNLPEQRCFSHWRMADCFTEIIESFRPLAQLNSVCGRTFMTPIPGHVGFYFNAFWKLEALSLRFPLKGLLPYSQDLLNPQMRLLTHVFMHYTYRDAIAVLLGTAKPEKSRIPYFEEVITEIILELMFTAECDHSQLNPQAWRIISTQIIYLTLQQSICFTRLVKILHTKLTHYPYRYARNQLMWCLFNFLSGGMQKYSVEEFAVILDLYRLLYTGRDIFTVSGSDSSCVLMLAPTCIWIHILKKSPSMEVELPPTVNTQRKFLQEALKNKTQFNTDNYMVAVLCNAYSSTSEIFQQDLLPILLENLDNTRGHNSTQASGNFASNATSSMPYPNGAVSEVKLRPLKLEFLDSVSVHVRMNIANSLIGTFGRFMQGKSAWPSPALVETYCRMLTYPDLEILGLKQFTSHIVLTAARHQCCEMMYICCEILNYRLFNIPSTYRVHAIVTLQQTLAFAKFQTNASLYWMLERTLLLQFQWYPHYEIFQAPFARLLNSFVAVAADGTKQSIAENEELMRIIILTLARSTVISSNSDSCFIEGVYRELLNKLPSYSWPQSTLSVFPQVFCSHYTQQQQQQQQQQQQQQQQQQQQPQQPQQQQQQQQQPQPQQSNVVVGSSQQPQQQQQSRFLLKQQVDEEYIKHRTFGSELSLIDYFTNTSTSTVYLCLLWRLVYDTGELPAVSMKILEVLGPRKVLVHLKSLADFLVYETNSADVNRCVDVLNRLIFKYAVVPLERFMLTMLLRDYEGNDAFYALLIVMLLVQRSEELRSAVADCVAMLPSDYWHCQDWNDKYQAYQIKHAERTWSQVYVELSRASLTPNDCPLPVYFGTRCLQMLPVVDLLLQKLVESPAACLKFLDSTLSILGPLYRFHPYPVSFLYSTFRFYEKRLVESPAIKQKLALAVHGACVPSRDDHWLLSAEFVGWVGQATDRGPWVPDLNYYGALVRRLIDTFSEPRQQWSRKTDLRFVEFNNFQTHALYSICIELMSLPVGVVDVGNALVTLVTHWHSLVDKNTVMYWVNAIGLIFSALPISYMEPFYQTILTTLCSDHMNSINTDVSNKLDFEKRSKLMEDCYPARILALCHAVWLHSASGYLQLLPQALRSTWIPHVRSEGQFLYVCHLVAPFLQRFYQERTKFTMDITTDLYQMLYNVDCEVGNWKYEDLICDFFYHVKYMYVGDSVRQDTDRIIPMLRPSLQQKLRYISFAQGEQSAGTPFSEMINPIKLLGIQMVVWLQRLPIFGETAQHFWLAVTKLGDPVMTFSLYFPALFPFFGTAALDMVIVGAFSEISNCILKWILLDDRPYWWVHTAGVSGQLSHPLKQFQWTCETGPGSPSGHAMVSASVWFNLLYNLQSDLVLGDLCGICWLLYVVFLIAVSISRTYISAHFPDQVILGIVVGICMALVTRSLVGHRRRRWSNLIAFMIALLLIALSVHEAHRFFGVDTHRSIELAAKYCHRAEWIHQSTTPLASFFRDVGVLISVAILLANKSMFTNNNKIASKFFSTKFAQALLGVGLNQLVALIPIGRLPTALFYAVLLPVLFTNNSNKLQ
Length1733
PositionTail
OrganismTrichinella patagoniensis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.12
Grand average of hydropathy0.055
Instability index47.13
Isoelectric point7.74
Molecular weight199014.34
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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06183
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.08|      22|      40|     751|     779|       1
---------------------------------------------------------------------------
  751-  779 (38.88/35.69)	PQvfcshytQQQQQQQQQQQQQQQQQQQQ
  780-  799 (37.32/18.92)	PQ.......QPQQQQQQQQQPQPQQSN..
  803-  821 (27.88/10.31)	..........GSSQQPQQQQQSRFLLKQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     166.08|      37|      40|    1001|    1037|       2
---------------------------------------------------------------------------
  932-  973 (30.33/13.52)	.......Y.EGNDAFYAL.LIVMLLVQRseeLRSAVAdcVAMLPSDywhCQ
  979- 1009 (49.65/26.82)	Y....QAY.......QIK.HAERTWSQV...YVELSR..ASLTPND...CP
 1010- 1046 (61.15/34.74)	L....PVY.FGTRCLQML.PVVDLLLQK...LVESPA..ACLKFLD...ST
 1047- 1080 (24.96/ 9.82)	LsilgPLYrFHPYPVSFLySTFRFYEKR...LVESPA..............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     187.39|      53|      81|    1563|    1615|       3
---------------------------------------------------------------------------
 1188- 1226 (43.97/24.41)	...........LVThwHSLVDKNTVMyWVN......AIGLIFSAL................................PISYMEPFY..QT
 1541- 1575 (39.83/21.37)	VLGDLCGICWLL.......................................................yvvfliavsiSRTYISAHFPDQV
 1576- 1658 (63.92/39.06)	ILGIVVGICMALVT..RSLVGHRRRR.WSNLIA..FMIALLLIALsvheahrffgvdthrsielaakychraewihqSTTPLASFFRD..
 1659- 1699 (39.67/21.25)	.VGVLISVAILLAN..KSMFTNNNKI.ASKFFStkFAQALLGVGL.............................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.88|      25|      79|    1430|    1454|       4
---------------------------------------------------------------------------
 1430- 1454 (44.16/24.66)	QHFWLAVTKLGDP....VMTFSL.................YFPALF
 1468- 1505 (20.81/ 7.68)	GAF....SEISNC....ILKWILlddrpywwvhtagvsgqLSHPLK
 1506- 1534 (39.91/21.56)	QFQWTCETGPGSPsghaMVSASV.................WFNLLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.72|      15|      80|     273|     287|       5
---------------------------------------------------------------------------
  273-  287 (28.85/20.36)	RLLTHVFMHYTYRDA
  355-  369 (28.86/20.37)	KILHTKLTHYPYRYA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     157.68|      38|      84|     112|     154|       6
---------------------------------------------------------------------------
   79-  110 (45.79/23.24)	NSA....NRIVDFFVRNVTQRQMLSIKCICEKLLTC.....
  116-  154 (63.00/51.33)	NSCgW..NDTFAFFVENISLLDYKGVRDTLKRLLDIPIPVH
  203-  237 (48.89/28.45)	....WrmADCFTEIIE..SFRPLAQLNSVCGRTFMTPIPGH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.35|      34|      40|     456|     495|       7
---------------------------------------------------------------------------
  458-  495 (54.94/48.97)	LKNKTQFN....TDNYMvavlCNAYSS....TSEIFQQDLLPILLE
  497-  538 (46.41/26.02)	LDNTRGHNstqaSGNFA....SNATSSmpypNGAVSEVKLRPLKLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.06|      27|      34|    1268|    1301|       8
---------------------------------------------------------------------------
 1101- 1128 (49.53/18.92)	WLLSA.EFVGWVGQATdRGPWVPDLNYYG
 1272- 1299 (47.53/37.50)	WLHSAsGYLQLLPQAL.RSTWIPHVRSEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     193.10|      46|      85|     545|     590|       9
---------------------------------------------------------------------------
  545-  590 (79.90/54.62)	VHVRMNIANSLIGTFGRFMQGKS.AWPSPALVETYCRMLT.YPDLEIL
  592-  626 (53.68/33.90)	LK...QFTSHIVLTAARH........QCCEMMYICCEILN.YRLFNI.
  632-  674 (59.52/38.52)	VHAIVTLQQTL..AFAKFQTNASlYW...MLERTLLLQFQwYPHYEIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.83|      13|      85|     298|     319|      13
---------------------------------------------------------------------------
  181-  194 (21.26/ 6.52)	LPaYF..VITEIIKNL
  302-  316 (20.56/22.55)	IP.YFeeVITEIILEL
---------------------------------------------------------------------------




































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 MDP06183 with Med23 domain of Kingdom Metazoa
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