Citrus Sinensis ID: 044000

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420
Protein Sequence
MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccHHHHHHHHHHHHHHHHHHHccccccEEHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEcccHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEcccccccccccccccccccccc
Coil and Loop (DISEMBL)
mlqhqivqsparlgltnpnspslqnpnpnpsptkfptsathhhlrsatpptapittgttactsstllsllpplPRAQALLLQMASLASKLFEVSPNRSLWISAFRgslptflssqaqsqppppidsspstIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVddysdyrrpkrvkseggdgndddsgscsttveSRLNLSDILSYAHrisyttfappefgagqgplrgalppapqeeqMRASQlytfadldvglpkvvETKEKTIEaiieppplqpvdanplkdlagllppnitvpsgwkpgmpvelpkdfplvpppgwkpgdavplppldalpmprieeqqlrpvppqglhkppepiqvrhveldildqdddssdysseegsseddg
Flexible Loop (DISEMBL)
mlqhqivqsparlgltnpnspslQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDilvddysdyrrpkrvkseggdgndddsgsCSTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIeaiieppplqpvDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDqdddssdysseegsseddg
Low Complexity Region (SEG)
MLQHQIVQSPARLGLTnpnspslqnpnpnpspTKFPTSATHHHLRsatpptapittgttactsstllsllpplpraqalllqmaslasKLFEVSPNRSLWISAFRGSLPTFLssqaqsqppppidsspsTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKseggdgndddsgscsTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVetkektieaiiepppLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKpgdavplppldalpmpRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQdddssdysseegsseddg
Disordered region (IsUnstruct)
*********************************************************TTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPT********************IKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSD*****************************LNLSDILSYAHRISYTTFAP**************************QLYTFADLDVGLPKVVETKEKTIEAIIE************KDLAGLLPPNITVPSGW*****************************************************************************************
Disordered Region (DISOPRED)
*************************************************************************PRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPT***********************IIACFTSLQTQLFEAVAELQEILDL*D**********A*DSAILAFANKIKEAERVLDILVDDYSDY***************************RLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFAD********************************************TVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPL**********************************************************
Disordered Region (DISEMBL)
MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPT**************TPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFL**************SPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRP********************TVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQD*****************
Disordered Region (DISPRO)
**QHQIVQSPARLGLT***SPSL****************************************STLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSS****QPPPP**SSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYR*********************TTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDIL********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	420	2.2.26 [Sep-21-2011]
Q9LZ00	426	Mediator of RNA polymeras	yes	no	0.942	0.929	0.658	1e-115
Q54D00	343	Putative mediator of RNA	yes	no	0.345	0.422	0.272	2e-07

>sp|Q9LZ00|MED4_ARATH Mediator of RNA polymerase II transcription subunit 4 OS=Arabidopsis thaliana GN=MED4 PE=1 SV=1

 Score =  416 bits (1068), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 272/413 (65%), Positives = 320/413 (77%), Gaps = 17/413 (4%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNP--NPSPTKFPTSATHHHLRSATP--------P 50
           MLQHQIVQSPARLGLT P SPS+QNP P  +  PT   +S + H      P         
Sbjct: 1   MLQHQIVQSPARLGLTGPGSPSVQNPTPTRHGHPTSSSSSQSQHQQIQQQPNLLPSSTVA 60

Query: 51  TAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPT 110
            A   + + A +SS LLSLLPPLPRAQALL QMA L SKLF+VSPNR++W+SAFRGSLP+
Sbjct: 61  AASSASASAAVSSSALLSLLPPLPRAQALLQQMAVLTSKLFDVSPNRAIWLSAFRGSLPS 120

Query: 111 FLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIK 170
           FLSS +   PPP  + SPS+ KEI++ F SLQTQLFEAV ELQEILDLQDAKQK+AREIK
Sbjct: 121 FLSSHSLPPPPPLENPSPSSTKEILSQFNSLQTQLFEAVTELQEILDLQDAKQKVAREIK 180

Query: 171 AKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVK-SEGGDGNDDDSGSCSTTVESRL 229
           +KDS++LAFANK+K+AERVLD+LVDDYSDYR+PKR K  E  + ND++S S STTV S+L
Sbjct: 181 SKDSSLLAFANKLKDAERVLDMLVDDYSDYRKPKRSKIEEDDEDNDNESSSSSTTVSSQL 240

Query: 230 NLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKV 289
            L DIL+YAH+ISYTTFAPPEFGAGQ PLRGALPPAPQ+EQMRASQLYTFADLD+GLPK 
Sbjct: 241 KLKDILAYAHKISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYTFADLDIGLPKT 300

Query: 290 VETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPP 349
           VE  EK +EA+IEPPP  P +A  +  +  LLPPNI VPSGWKPGMPVEL      +PPP
Sbjct: 301 VENMEKKVEALIEPPP--PPEAMDISAIHNLLPPNIAVPSGWKPGMPVEL-PRDLPLPPP 357

Query: 350 GWKPGDAVPLPPLDALPMPRIEE-QQLRPVPPQGLHKPPEPIQVRHVELDILD 401
           GWKPGD V LPPL+++  PR E+ Q +R  P QGLH+PP+ IQVR V+LDIL+
Sbjct: 358 GWKPGDPVVLPPLESIAAPRAEDHQHMR--PSQGLHRPPDVIQVRAVQLDILE 408

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity).
Arabidopsis thaliana (taxid: 3702)

>sp|Q54D00|MED4_DICDI Putative mediator of RNA polymerase II transcription subunit 4 OS=Dictyostelium discoideum GN=med4 PE=3 SV=1

 Score = 57.4 bits (137), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 78/169 (46%), Gaps = 24/169 (14%)

Query: 125 DSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIK 184
           +++P+ + +++     +       + +L++   +Q    +I +EI+ KD  I   A  +K
Sbjct: 62  NATPNMVLQLMNHLIDVDKIYQNTLKKLEKHQKIQKEITEIQKEIEEKDKLISTLALNLK 121

Query: 185 EAERVLDILVDDYSDYRRPKRVKSEGGDGND-------------DDSGSCSTTVESRLNL 231
           + E  L+       +      V    G+ +D             DD+ S    V   ++ 
Sbjct: 122 DIESFLE-------NELSQDNVNINNGNASDGIVNEVLIDLKQPDDAASMDNIVNREVSP 174

Query: 232 SDILSYAHRISYTTFAPPEFGAG-QGPLRGAL-PPAPQEEQMRASQLYT 278
            D++SYAH+IS TT AP  FG     PL     PPAPQ+E MR+S L+T
Sbjct: 175 EDLISYAHKISGTTSAP--FGYQPNAPLASLFKPPAPQDEMMRSSVLFT 221

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Dictyostelium discoideum (taxid: 44689)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	420
449448711	404	PREDICTED: mediator of RNA polymerase II	0.957	0.995	0.704	1e-149
357518055	402	hypothetical protein MTR_8g075790 [Medic	0.892	0.932	0.699	1e-145
225439765	414	PREDICTED: uncharacterized protein LOC10	0.961	0.975	0.723	1e-143
147807720	1448	hypothetical protein VITISV_018166 [Viti	0.947	0.274	0.719	1e-140
224138570	397	predicted protein [Populus trichocarpa]	0.890	0.942	0.663	1e-132
357500889	579	hypothetical protein MTR_6g089780 [Medic	0.897	0.651	0.694	1e-124
357501019	538	hypothetical protein MTR_6g090580 [Medic	0.897	0.700	0.694	1e-124
356519021	388	PREDICTED: uncharacterized protein LOC10	0.866	0.938	0.670	1e-123
356524055	388	PREDICTED: uncharacterized protein LOC10	0.876	0.948	0.645	1e-121
255568436	401	conserved hypothetical protein [Ricinus	0.890	0.932	0.650	1e-115

>gi|449448711|ref|XP_004142109.1| PREDICTED: mediator of RNA polymerase II transcription subunit 4-like [Cucumis sativus] gi|449520010|ref|XP_004167027.1| PREDICTED: mediator of RNA polymerase II transcription subunit 4-like [Cucumis sativus]

 Score =  535 bits (1379), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 296/420 (70%), Positives = 340/420 (80%), Gaps = 18/420 (4%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTA 60
           MLQHQIVQSPARLGLTNPNSPS+QNP    +P K P S   HH   +   ++  ++    
Sbjct: 1   MLQHQIVQSPARLGLTNPNSPSIQNP----TPPKLPPSQQSHHQNQSNLSSSTPSSTLLP 56

Query: 61  CTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQP 120
                         RAQALLLQMASLASKLFEVSPNRSLW++AFRGSLPTFL+SQ QS P
Sbjct: 57  LLPPLP--------RAQALLLQMASLASKLFEVSPNRSLWLTAFRGSLPTFLTSQTQSSP 108

Query: 121 PPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFA 180
              +DS+PS+ KEI++ F  LQTQLFEAVAELQEILDLQD+KQKIA EI+AKD+A+ AFA
Sbjct: 109 STLLDSTPSSSKEILSLFNVLQTQLFEAVAELQEILDLQDSKQKIAYEIRAKDAALRAFA 168

Query: 181 NKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHR 240
           NK+KEAE+VLD+L DDY+DY+RP+R K+EG   N+     CSTTV S+L LSDILSYAHR
Sbjct: 169 NKLKEAEQVLDVLFDDYADYQRPRRDKTEGDAENE---SLCSTTVASQLRLSDILSYAHR 225

Query: 241 ISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAI 300
           ISYTTFAPPEFGAGQ PLRGALPPAPQ+EQMRASQLY FA+LDVGLPK VE+ EKTIE +
Sbjct: 226 ISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFANLDVGLPKAVESTEKTIEPM 285

Query: 301 IEPP-PLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPL 359
           IEPP P++P DANPL  + GLLPPNITVPSGWKPGMPVELP D P+ PPPGWKPGD V L
Sbjct: 286 IEPPAPVRP-DANPLAAIQGLLPPNITVPSGWKPGMPVELPGDLPM-PPPGWKPGDPVRL 343

Query: 360 PPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDD 419
           PP+D+LP+ R++E QLRP    GLHKPPEPIQVRHV+LDILDQDDDSSDY+S+EGSSEDD
Sbjct: 344 PPMDSLPVTRVDEPQLRPNALPGLHKPPEPIQVRHVQLDILDQDDDSSDYTSDEGSSEDD 403

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357518055|ref|XP_003629316.1| hypothetical protein MTR_8g075790 [Medicago truncatula] gi|355523338|gb|AET03792.1| hypothetical protein MTR_8g075790 [Medicago truncatula]

 Score =  521 bits (1343), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 284/406 (69%), Positives = 326/406 (80%), Gaps = 31/406 (7%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHH--LRSATPPTAPITTGT 58
           MLQHQIVQSPARLGLTNPNSPS+ NPNP     K P S T+HH    SATP         
Sbjct: 1   MLQHQIVQSPARLGLTNPNSPSILNPNPQ----KLPPSQTNHHQDRHSATP--------- 47

Query: 59  TACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQS 118
               S+ L+SLLPPLPRAQALL QMASLASKLFEVSPNRS+W++AFRGSLPTFLSSQ Q 
Sbjct: 48  ----SAALISLLPPLPRAQALLSQMASLASKLFEVSPNRSVWVTAFRGSLPTFLSSQTQP 103

Query: 119 QPPPPIDSS-PSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAIL 177
                ++SS PST KEII+ FT+LQTQ+FEAV+ELQEI+DLQDAK+KI  EI++KDSA+L
Sbjct: 104 HSFSSLESSLPSTTKEIISLFTTLQTQIFEAVSELQEIIDLQDAKKKIDGEIRSKDSALL 163

Query: 178 AFANKIKEAERVLDILVDDYSDYRRP-KRVKSEGGDGNDDDSGSCSTTVESRLNLSDILS 236
           AFANK+K+AER LDILVDDYSDYRR  KR+KS  GDG++DDS + ST V S+L LSDILS
Sbjct: 164 AFANKLKDAERELDILVDDYSDYRRSIKRLKS--GDGSEDDSLTTST-VSSQLKLSDILS 220

Query: 237 YAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKT 296
           YAHRISYTTFAPPEFGAG  PLRGA+PPAPQ+EQMRASQLY FADLD+GLPK VETKEKT
Sbjct: 221 YAHRISYTTFAPPEFGAGTAPLRGAMPPAPQDEQMRASQLYNFADLDIGLPKAVETKEKT 280

Query: 297 IEAIIEPPPLQPVDANPLKDLA---GLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKP 353
           +EAIIEPPP   VD NPL +L+   G+LPPN  +P GWKPGMPV+LP D P+ PPPGWKP
Sbjct: 281 VEAIIEPPP--SVDTNPLGNLSAIQGMLPPNFAIPPGWKPGMPVQLPIDMPIKPPPGWKP 338

Query: 354 GDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
           GD V LPP+D+LP+PR EEQ+L P  PQ   + PE IQV+HV LD+
Sbjct: 339 GDPVALPPIDSLPVPRFEEQKLPPHIPQP--RQPEIIQVQHVNLDL 382

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439765|ref|XP_002273310.1| PREDICTED: uncharacterized protein LOC100249946 [Vitis vinifera]

 Score =  515 bits (1327), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 306/423 (72%), Positives = 341/423 (80%), Gaps = 19/423 (4%)

Query: 2   LQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTAC 61
           +QHQIVQSPARLGL NPNSPSLQN           T+         +      +  +T  
Sbjct: 5   VQHQIVQSPARLGLPNPNSPSLQNS----------TAPKLSSQIPQSQQPHQQSNLSTTT 54

Query: 62  TSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPP 121
           TSSTLLSLLPPL RAQ+LLLQMASLAS+LFEVSPNRSLW+++FRG+LPTFLSSQ+    P
Sbjct: 55  TSSTLLSLLPPLSRAQSLLLQMASLASRLFEVSPNRSLWLTSFRGTLPTFLSSQSIPPTP 114

Query: 122 PPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFAN 181
            P++ SPS+ KEI++ FTSLQTQLFEAVAELQEILDLQDAKQKI REI++KDSAILAFAN
Sbjct: 115 TPLEHSPSSTKEILSLFTSLQTQLFEAVAELQEILDLQDAKQKITREIRSKDSAILAFAN 174

Query: 182 KIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRI 241
           K+KEAE VLDILVDDYSDYRRPKR  S   D + +DS SC+TTV S+LNLSDILSYAHRI
Sbjct: 175 KLKEAEAVLDILVDDYSDYRRPKR--SNTAD-DSEDSSSCTTTVASQLNLSDILSYAHRI 231

Query: 242 SYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAII 301
           SYTTFAPPEFGAGQ PLRGALPPAPQEEQMRASQLY F+DLDVGLPK V  KEKTIE  I
Sbjct: 232 SYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFSDLDVGLPKAVGIKEKTIETFI 291

Query: 302 EPPPLQPVDANPLKDL---AGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVP 358
           EPPP QP D+NPL +L    GLLPPNITVPSGWKPGMPVELP   P+VPPPGWKPGD VP
Sbjct: 292 EPPPAQPADSNPLANLPSIQGLLPPNITVPSGWKPGMPVELPS-LPIVPPPGWKPGDPVP 350

Query: 359 LPPLDALPMP-RIEEQQLRPVPPQGLHKPPEPIQVRHVELDI-LDQDDDSSDYSSEEGSS 416
           LPPL+++P+P R EEQ  RP+   GL K PEPI V HV+LDI LDQDDDSSDYSSE GSS
Sbjct: 351 LPPLESIPIPSRAEEQLPRPLAAHGLQKAPEPIHVPHVQLDINLDQDDDSSDYSSEMGSS 410

Query: 417 EDD 419
           ED+
Sbjct: 411 EDE 413

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147807720|emb|CAN66553.1| hypothetical protein VITISV_018166 [Vitis vinifera]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 300/417 (71%), Positives = 335/417 (80%), Gaps = 19/417 (4%)

Query: 8    QSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLL 67
            +SPARLGL NPNSPSLQN           T+         +      +  +T  TSSTLL
Sbjct: 1045 KSPARLGLPNPNSPSLQNS----------TAPKLSSQIPQSQQPHQQSNLSTTTTSSTLL 1094

Query: 68   SLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSS 127
            SLLPPL RAQ+LLLQMASLAS+LFEVSPNRSLW+++FRG+LPTFLSSQ+    P P++ S
Sbjct: 1095 SLLPPLSRAQSLLLQMASLASRLFEVSPNRSLWLTSFRGTLPTFLSSQSIPPTPTPLEHS 1154

Query: 128  PSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAE 187
            PS+ KEI++ FTSLQTQLFEAVAELQEILDLQDAKQKI REI++KDSAILAFANK+KEAE
Sbjct: 1155 PSSTKEILSLFTSLQTQLFEAVAELQEILDLQDAKQKITREIRSKDSAILAFANKLKEAE 1214

Query: 188  RVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFA 247
             VLDILVDDYSDYRRPKR  S   D + +DS SC+TTV S+LNLSDILSYAHRISYTTFA
Sbjct: 1215 AVLDILVDDYSDYRRPKR--SNTAD-DSEDSSSCTTTVASQLNLSDILSYAHRISYTTFA 1271

Query: 248  PPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQ 307
            PPEFGAGQ PLRGALPPAPQEEQMRASQLY F+DLDVGLPK V  KEKTIE  IEPPP Q
Sbjct: 1272 PPEFGAGQAPLRGALPPAPQEEQMRASQLYNFSDLDVGLPKAVGIKEKTIETFIEPPPAQ 1331

Query: 308  PVDANPLKDL---AGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDA 364
            P D+NPL +L    GLLPPNITVPSGWKPGMPVELP   P+VPPPGWKPGD VPLPPL++
Sbjct: 1332 PADSNPLANLPSIQGLLPPNITVPSGWKPGMPVELP-SLPIVPPPGWKPGDPVPLPPLES 1390

Query: 365  LPMP-RIEEQQLRPVPPQGLHKPPEPIQVRHVELDI-LDQDDDSSDYSSEEGSSEDD 419
            +P+P R EEQ  RP+   GL K PEPI V HV+LDI LDQDDDSSDYSSE GSSED+
Sbjct: 1391 IPIPSRAEEQLPRPLAAHGLQKAPEPIHVPHVQLDINLDQDDDSSDYSSEMGSSEDE 1447

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138570|ref|XP_002322847.1| predicted protein [Populus trichocarpa] gi|222867477|gb|EEF04608.1| predicted protein [Populus trichocarpa]

 Score =  477 bits (1228), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 266/401 (66%), Positives = 308/401 (76%), Gaps = 27/401 (6%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSL--QNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGT 58
           M QHQIVQSPARLGLTNP SPSL  Q PNP P     P    HHH  + T  T   +   
Sbjct: 1   MHQHQIVQSPARLGLTNPTSPSLPVQTPNPPPPKFPNPQPPQHHHPSTTTTTTTTSSALL 60

Query: 59  TACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQS 118
           +               RAQ+LLLQMASLA+KLFE+SPNR  W+SA+RG+LPTFL SQ+QS
Sbjct: 61  SLLPPLP---------RAQSLLLQMASLATKLFELSPNRPHWLSAYRGTLPTFLPSQSQS 111

Query: 119 QPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILA 178
              P    +P++ KEII+ FTSLQTQLFE+VAELQEILDLQD+KQ+I++EIK+KDSA+L 
Sbjct: 112 LDEP----TPTSTKEIISLFTSLQTQLFESVAELQEILDLQDSKQRISQEIKSKDSALLN 167

Query: 179 FANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYA 238
           FANK+KEAERVLDILVDDY+DYRR + +        ++++ + +TTV S+L LSDILSYA
Sbjct: 168 FANKLKEAERVLDILVDDYADYRRRRPIPP----NEEEENATNTTTVASQLKLSDILSYA 223

Query: 239 HRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIE 298
           HRISYTTFAPPEFGAGQ PLRGALPPAPQEEQMRASQLY FA LDVGLPK VETKEKTIE
Sbjct: 224 HRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFAHLDVGLPKDVETKEKTIE 283

Query: 299 AIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVP 358
           AIIEP      +ANPL++LAGL PPNI+VP+GWKPGMPV LP D P VPPPGWKPGD V 
Sbjct: 284 AIIEP----QHEANPLENLAGLFPPNISVPAGWKPGMPVVLPTDLP-VPPPGWKPGDPV- 337

Query: 359 LPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
              LD++P+PR  EQ+L P+ PQGLHKPPE IQVRHVELDI
Sbjct: 338 --SLDSIPLPRAVEQKLPPIAPQGLHKPPETIQVRHVELDI 376

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357500889|ref|XP_003620733.1| hypothetical protein MTR_6g089780 [Medicago truncatula] gi|355495748|gb|AES76951.1| hypothetical protein MTR_6g089780 [Medicago truncatula]

 Score =  452 bits (1164), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 280/403 (69%), Positives = 316/403 (78%), Gaps = 26/403 (6%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTA 60
           MLQHQ+VQSPARLGLTNPNSP + NP P   P    T+  HH  R              A
Sbjct: 1   MLQHQVVQSPARLGLTNPNSPLIPNPTPPKLPPLQTTN--HHQDRH------------LA 46

Query: 61  CTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQP 120
             S  LLSLLPPLPRAQALL QMASL++KLFEVSPN+SLW+SAFRGSLPTFLSSQ Q + 
Sbjct: 47  TPSPALLSLLPPLPRAQALLQQMASLSTKLFEVSPNKSLWVSAFRGSLPTFLSSQGQPRS 106

Query: 121 PPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFA 180
              +DSSPST KEI++ FT+LQTQ+FEAV+ELQE+LD +DAKQKI +EI +KDSA+LAFA
Sbjct: 107 SASLDSSPSTTKEILSLFTNLQTQMFEAVSELQEVLDQKDAKQKIDQEICSKDSALLAFA 166

Query: 181 NKIKEAERVLDILVDDYSDYR-RPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAH 239
           NK+K+AERVLDILVDDYSDYR + KR+K   GDG++D S + S TV S+L LSDILSYAH
Sbjct: 167 NKLKDAERVLDILVDDYSDYRSKTKRLKL--GDGSEDVSLTTS-TVSSQLKLSDILSYAH 223

Query: 240 RISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEA 299
           RISYTTFAPPEFGAGQ PLRGALPPAPQ+EQMRASQLY FADLD+GLPK  ET EKTIEA
Sbjct: 224 RISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFADLDIGLPKSAETTEKTIEA 283

Query: 300 IIEPPPLQPVDANPLKDL---AGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDA 356
           IIEPPPLQPVDAN L +L    GLLPPN TVP+GWKPGMPV+LP D P+ PPPGWKPGD 
Sbjct: 284 IIEPPPLQPVDANSLANLPGIQGLLPPNFTVPAGWKPGMPVQLPIDIPIKPPPGWKPGDP 343

Query: 357 VPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
           V    LD+L +PRIEEQQL P  PQ   K PE IQV  V LD+
Sbjct: 344 V---ALDSLSIPRIEEQQLHPHVPQP--KLPEIIQVAPVNLDL 381

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357501019|ref|XP_003620798.1| hypothetical protein MTR_6g090580 [Medicago truncatula] gi|355495813|gb|AES77016.1| hypothetical protein MTR_6g090580 [Medicago truncatula]

 Score =  452 bits (1163), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 280/403 (69%), Positives = 316/403 (78%), Gaps = 26/403 (6%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTA 60
           MLQHQ+VQSPARLGLTNPNSP + NP P   P    T+  HH  R              A
Sbjct: 1   MLQHQVVQSPARLGLTNPNSPLIPNPTPPKLPPLQTTN--HHQDRH------------LA 46

Query: 61  CTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQP 120
             S  LLSLLPPLPRAQALL QMASL++KLFEVSPN+SLW+SAFRGSLPTFLSSQ Q + 
Sbjct: 47  TPSPALLSLLPPLPRAQALLQQMASLSTKLFEVSPNKSLWVSAFRGSLPTFLSSQGQPRS 106

Query: 121 PPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFA 180
              +DSSPST KEI++ FT+LQTQ+FEAV+ELQE+LD +DAKQKI +EI +KDSA+LAFA
Sbjct: 107 SASLDSSPSTTKEILSLFTNLQTQMFEAVSELQEVLDQKDAKQKIDQEICSKDSALLAFA 166

Query: 181 NKIKEAERVLDILVDDYSDYR-RPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAH 239
           NK+K+AERVLDILVDDYSDYR + KR+K   GDG++D S + S TV S+L LSDILSYAH
Sbjct: 167 NKLKDAERVLDILVDDYSDYRSKTKRLKL--GDGSEDVSLTTS-TVSSQLKLSDILSYAH 223

Query: 240 RISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEA 299
           RISYTTFAPPEFGAGQ PLRGALPPAPQ+EQMRASQLY FADLD+GLPK  ET EKTIEA
Sbjct: 224 RISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFADLDIGLPKSAETTEKTIEA 283

Query: 300 IIEPPPLQPVDANPLKDL---AGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDA 356
           IIEPPPLQPVDAN L +L    GLLPPN TVP+GWKPGMPV+LP D P+ PPPGWKPGD 
Sbjct: 284 IIEPPPLQPVDANSLANLPGIQGLLPPNFTVPAGWKPGMPVQLPIDIPIKPPPGWKPGDP 343

Query: 357 VPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
           V    LD+L +PRIEEQQL P  PQ   K PE IQV  V LD+
Sbjct: 344 V---ALDSLSIPRIEEQQLHPHVPQP--KLPEIIQVAPVNLDL 381

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519021|ref|XP_003528173.1| PREDICTED: uncharacterized protein LOC100796958 [Glycine max]

 Score =  447 bits (1149), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 271/404 (67%), Positives = 308/404 (76%), Gaps = 40/404 (9%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHH--HLRSATPPTAPITTGT 58
           MLQHQIVQSPA LGL NPNSPS+ NP    +P K P + THH     S+TP         
Sbjct: 1   MLQHQIVQSPAMLGLANPNSPSIPNP----TPPKLPPTQTHHPQDRNSSTP--------- 47

Query: 59  TACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQS 118
               SS LLSLLPP  RAQALL QMASLASKLFEVSPNRSLW++AFRGSLPTFLSS + +
Sbjct: 48  ----SSALLSLLPPHLRAQALLAQMASLASKLFEVSPNRSLWVTAFRGSLPTFLSSHSST 103

Query: 119 QPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILA 178
               P+D+SPS  KEII+ FT LQTQ+FEA+AELQEILDLQDAKQKI  EI ++DS +LA
Sbjct: 104 ----PLDTSPSDGKEIISLFTVLQTQIFEAIAELQEILDLQDAKQKIDCEIHSQDSTLLA 159

Query: 179 FANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYA 238
           FANK+KEAE  LDILVDDYSDY R KR KS      DDDS + S+T+ S+L LSD+LSYA
Sbjct: 160 FANKLKEAESCLDILVDDYSDYHRSKRSKS-----GDDDSMT-SSTISSQLKLSDMLSYA 213

Query: 239 HRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIE 298
           HRISYTTFAPPEFGAGQ PLRGALPPAPQEEQMRASQLY FADLDVGLPK VETKEK +E
Sbjct: 214 HRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFADLDVGLPKEVETKEKIVE 273

Query: 299 AIIEPPPLQPVDANPLKDLA---GLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGD 355
           AI+EPPP   VD N + +L+   G+LPP   +P GWKPGMPV+LP D PL PP GWKPGD
Sbjct: 274 AIVEPPP--QVDTNTVPNLSAFQGMLPP---MPPGWKPGMPVQLPIDLPLPPP-GWKPGD 327

Query: 356 AVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
            VPLPP+D+L +PR  EQQ++P  PQ   K PE IQV+ V LD+
Sbjct: 328 PVPLPPMDSLQIPRFAEQQMQPHIPQP--KQPEVIQVQPVNLDL 369

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524055|ref|XP_003530648.1| PREDICTED: uncharacterized protein LOC100812071 [Glycine max]

 Score =  440 bits (1132), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 258/400 (64%), Positives = 292/400 (73%), Gaps = 32/400 (8%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTA 60
           MLQHQIVQSPARLGL NPNSPS+ N                HH +     T      +  
Sbjct: 1   MLQHQIVQSPARLGLANPNSPSIPN-----PTPPKLPPTQTHHPQDRNSSTPSSALLSLL 55

Query: 61  CTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQP 120
                         RAQALL QMASLASKLF+VSPNRSLW++AFRGSLPTFLSS + +  
Sbjct: 56  PPLP----------RAQALLAQMASLASKLFDVSPNRSLWVTAFRGSLPTFLSSHSST-- 103

Query: 121 PPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFA 180
             P+D+SPS  KEII+ FT LQTQ+FEAVAELQEILDLQDAKQKI REI+++DS +LAFA
Sbjct: 104 --PLDTSPSNAKEIISLFTVLQTQIFEAVAELQEILDLQDAKQKIDREIRSQDSTLLAFA 161

Query: 181 NKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHR 240
           NK+KEAE  LDILVDDYSDYRR KR KS      DDDS + S+TV S+L LSDILSYAHR
Sbjct: 162 NKLKEAESCLDILVDDYSDYRRSKRSKS-----GDDDSMT-SSTVSSQLKLSDILSYAHR 215

Query: 241 ISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAI 300
           ISYTTFAPPEFGAGQ PLRGALPPAPQEEQMRASQLY FADLDVGLPK VETKEK +EAI
Sbjct: 216 ISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFADLDVGLPKEVETKEKIVEAI 275

Query: 301 IEPPPLQPVDANP-LKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPL 359
           +EPPP    +A P L    G+LPP   +P GWKPGMPV+LP D   +PPPGWKPGD VPL
Sbjct: 276 VEPPPQVDTNAVPNLSAFQGMLPP---MPPGWKPGMPVQLPID-LPLPPPGWKPGDPVPL 331

Query: 360 PPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDI 399
           PP+D+L +PR  EQQ++P  PQ   K PE IQV+ V LD+
Sbjct: 332 PPMDSLQIPRFAEQQMQPHIPQP--KQPEVIQVQPVNLDL 369

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568436|ref|XP_002525192.1| conserved hypothetical protein [Ricinus communis] gi|223535489|gb|EEF37158.1| conserved hypothetical protein [Ricinus communis]

 Score =  422 bits (1085), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 261/401 (65%), Positives = 303/401 (75%), Gaps = 27/401 (6%)

Query: 1   MLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTA 60
           MLQHQIVQSPARLGLTNPNSPSLQNP    +P KFP +++      ++   + +      
Sbjct: 1   MLQHQIVQSPARLGLTNPNSPSLQNP----TPPKFPAASSQQQQHPSSALLSLLPPLR-- 54

Query: 61  CTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQP 120
                         RAQ+LLLQMASLASK FEVSPNR+LW+SAFRGSLPTFLSSQ QS  
Sbjct: 55  --------------RAQSLLLQMASLASKFFEVSPNRALWVSAFRGSLPTFLSSQTQS-- 98

Query: 121 PPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFA 180
             P++S+P + K+I++ FTSLQTQLFEAVAELQEILDLQDAKQ++AR+IK+ DSA+L FA
Sbjct: 99  ISPLESTPFSSKDILSLFTSLQTQLFEAVAELQEILDLQDAKQRLARDIKSHDSALLNFA 158

Query: 181 NKIKEAERVLDILVDDYSDYRRPKRVKS---EGGDGNDDDSGSCSTTVESRLNLSDILSY 237
           NK+KEAE +LDILVDDYSDYR+PK  KS   E  D ++  + + +TTV S+LNLSDILSY
Sbjct: 159 NKLKEAETLLDILVDDYSDYRKPKIAKSSLTEDDDVSNTTTSATTTTVASQLNLSDILSY 218

Query: 238 AHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTI 297
           AHRISYTTFAPPEFGAG  PLRGA PPAPQEEQMR SQLY FADLDVGLPK    +    
Sbjct: 219 AHRISYTTFAPPEFGAGTAPLRGAFPPAPQEEQMRVSQLYAFADLDVGLPKTETRERIIE 278

Query: 298 EAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAV 357
             I  PPP Q  D NPL +LAGL PP++TVPSGWKPGMPV LP D P  PP   KPGD +
Sbjct: 279 PIIEPPPPPQSADTNPLGNLAGLFPPSLTVPSGWKPGMPVVLPTDLPPPPPGW-KPGDPL 337

Query: 358 PLPPLDALPMPRIEEQQLRP-VPPQGLHKPPEPIQVRHVEL 397
           PLPPLD+LP+PR  EQQL+P V PQGLHKPPE IQVRHV++
Sbjct: 338 PLPPLDSLPLPRTNEQQLQPAVAPQGLHKPPETIQVRHVQI 378

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	420
TAIR|locus:2151266	426	AT5G02850 [Arabidopsis thalian	0.733	0.723	0.603	2e-98
DICTYBASE|DDB_G0292608	343	med4 "putative mediator comple	0.3	0.367	0.308	0.00012

TAIR|locus:2151266 AT5G02850 [Arabidopsis thaliana (taxid:3702)]

 Score = 918 (328.2 bits), Expect = 2.0e-98, Sum P(2) = 2.0e-98
 Identities = 190/315 (60%), Positives = 221/315 (70%)

Query:    89 KLFEVSPNRSLWISAFRGSLPTFLXXXXXXXXXXXXXXXXXTIKEIIACFTSLQTQLFEA 148
             KLF+VSPNR++W+SAFRGSLP+FL                 + KEI++ F SLQTQLFEA
Sbjct:    99 KLFDVSPNRAIWLSAFRGSLPSFLSSHSLPPPPPLENPSPSSTKEILSQFNSLQTQLFEA 158

Query:   149 VAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKX 208
             V ELQEILDLQDAKQK+AREIK+KDS++LAFANK+K+AERVLD+LVDDYSDYR+PKR K 
Sbjct:   159 VTELQEILDLQDAKQKVAREIKSKDSSLLAFANKLKDAERVLDMLVDDYSDYRKPKRSKI 218

Query:   209 XXXXXXXXX-XXXXXTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQ 267
                            TTV S+L L DIL+YAH+ISYTTFAPPEFGAGQ PLRGALPPAPQ
Sbjct:   219 EEDDEDNDNESSSSSTTVSSQLKLKDILAYAHKISYTTFAPPEFGAGQAPLRGALPPAPQ 278

Query:   268 EEQMRASQLYTFADLDVGLPKVVXXXXXXXXXXXXXXXLQPVDANPLKDLAGLLPPNITV 327
             +EQMRASQLYTFADLD+GLPK V                 P +A  +  +  LLPPNI V
Sbjct:   279 DEQMRASQLYTFADLDIGLPKTVENMEKKVEALIEPP--PPPEAMDISAIHNLLPPNIAV 336

Query:   328 PSGWKPGMPVELPKDFPLVPPPGWKXXXXXXXXXXXXXXXXRIEEQQ-LRPVPPQGLHKP 386
             PSGWKPGMPVELP+D PL PPPGWK                R E+ Q +RP   QGLH+P
Sbjct:   337 PSGWKPGMPVELPRDLPL-PPPGWKPGDPVVLPPLESIAAPRAEDHQHMRP--SQGLHRP 393

Query:   387 PEPIQVRHVELDILD 401
             P+ IQVR V+LDIL+
Sbjct:   394 PDVIQVRAVQLDILE 408

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0016592 "mediator complex" evidence=IDA

DICTYBASE|DDB_G0292608 med4 "putative mediator complex subunit 4" [Dictyostelium discoideum (taxid:44689)]

 Score = 119 (46.9 bits), Expect = 0.00012, P = 0.00012
 Identities = 42/136 (30%), Positives = 63/136 (46%)

Query:   151 ELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDI-LVDDYSDYRRPKR---- 205
             +L++   +Q    +I +EI+ KD  I   A  +K+ E  L+  L  D  +          
Sbjct:    88 KLEKHQKIQKEITEIQKEIEEKDKLISTLALNLKDIESFLENELSQDNVNINNGNASDGI 147

Query:   206 VKXXXXXXXXXXXXXXXTTVESR-LNLSDILSYAHRISYTTFAPPEFG-AGQGPLRGAL- 262
             V                  + +R ++  D++SYAH+IS TT AP  FG     PL     
Sbjct:   148 VNEVLIDLKQPDDAASMDNIVNREVSPEDLISYAHKISGTTSAP--FGYQPNAPLASLFK 205

Query:   263 PPAPQEEQMRASQLYT 278
             PPAPQ+E MR+S L+T
Sbjct:   206 PPAPQDEMMRSSVLFT 221


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.137   0.407    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      420       280   0.00082  115 3  11 22  0.37    34
                                                     33  0.41    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  599 (64 KB)
  Total size of DFA:  182 KB (2104 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  22.68u 0.11s 22.79t   Elapsed:  00:00:01
  Total cpu time:  22.68u 0.11s 22.79t   Elapsed:  00:00:01
  Start:  Sat May 11 03:59:39 2013   End:  Sat May 11 03:59:40 2013

GO:0016592 "mediator complex" evidence=IEA;ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LZ00	MED4_ARATH	No assigned EC number	0.6585	0.9428	0.9295	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	420
pfam10018	176	pfam10018, Med4, Vitamin-D-receptor interacting Me	3e-28

>gnl|CDD|192445 pfam10018, Med4, Vitamin-D-receptor interacting Mediator subunit 4

 Score =  109 bits (273), Expect = 3e-28
 Identities = 45/189 (23%), Positives = 72/189 (38%), Gaps = 32/189 (16%)

Query: 132 KEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLD 191
            E+     S   +L  A+ EL+E  + Q    ++  E+++ D  I     ++KEAE+ L 
Sbjct: 1   LELAEDLISADDELKSALKELEEHQENQQRILELRAEVESLDEKIKDILKELKEAEKELR 60

Query: 192 ILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFAPPEF 251
            L D  S     K  K +                   ++  ++L YAHRIS  T APP  
Sbjct: 61  TLPDLSSI---NKANKRK-------------------VSSEELLKYAHRISKFTSAPPTV 98

Query: 252 GAG-------QGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVV---ETKEKTIEAII 301
            +G         PL     P P E++MR   L   + L     +       +E+  +A  
Sbjct: 99  SSGAIAPNNWIAPLGDLFRPWPAEDEMRRGLLAQSSLLSKEGIEPPGFDPEEEEERKARE 158

Query: 302 EPPPLQPVD 310
                +  D
Sbjct: 159 AEAKTEEED 167

Members of this family function as part of the Mediator (Med) complex, which links DNA-bound transcriptional regulators and the general transcription machinery, particularly the RNA polymerase II enzyme. They play a role in basal transcription by mediating activation or repression according to the specific complement of transcriptional regulators bound to the promoter. Length = 176

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	420
KOG4552	272	consensus Vitamin-D-receptor interacting protein c	99.97
PF10018	188	Med4: Vitamin-D-receptor interacting Mediator subu	99.96
PF05983	162	Med7: MED7 protein; InterPro: IPR009244 The Mediat	94.75
PRK11637	428	AmiB activator; Provisional	88.95
PF14817	632	HAUS5: HAUS augmin-like complex subunit 5	85.63
PF10417	40	1-cysPrx_C: C-terminal domain of 1-Cys peroxiredox	84.17
PF05600	507	DUF773: Protein of unknown function (DUF773); Inte	83.53
PF04859	131	DUF641: Plant protein of unknown function (DUF641)	83.23
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	83.07
PRK11637	428	AmiB activator; Provisional	81.38
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	80.67
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	80.22

>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]

Probab=99.97  E-value=7.3e-32  Score=254.02  Aligned_cols=125  Identities=22%  Similarity=0.367  Sum_probs=118.7

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccCCC
Q 044000          132 KEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGG  211 (420)
Q Consensus       132 keil~lf~s~QtqL~eAV~ELQE~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yqa~KRlKs~~~  211 (420)
                      -+||+||.++|..+.+.++..-|.+++++.|+.|+++||.||+.|++++|+||+||.+|.++|     ||++.|+|++  
T Consensus        46 v~il~Ll~~kd~ef~~llkla~eq~k~e~~m~~Lea~VEkrD~~IQqLqk~LK~aE~iLtta~-----fqA~qKLksi--  118 (272)
T KOG4552|consen   46 VNILKLLDSKDDEFKTLLKLAPEQQKREQLMRTLEAHVEKRDEVIQQLQKNLKSAEVILTTAC-----FQANQKLKSI--  118 (272)
T ss_pred             HHHHHHHHhccHHHHHHHHHhHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHH--
Confidence            489999999999998888888889999999999999999999999999999999999999999     9998888886  


Q ss_pred             CCCCCCCCCcccccccCCChHHHHHHHhhhhccc--CCCCCCCCCCCCCCCCCCCCCcHHHHhhhhhhh
Q 044000          212 DGNDDDSGSCSTTVESRLNLSDILSYAHRISYTT--FAPPEFGAGQGPLRGALPPAPQEEQMRASQLYT  278 (420)
Q Consensus       212 ~~~~e~~~~~~~A~~~~V~~eDLIsYAHRIS~TT--sAPp~wqpGq~PlR~~~PPaPQEeeMRaG~L~~  278 (420)
                                ++|++++|++|+||+||||||.+|  |||++|++| ||+|    |||||+|||+|+|+.
T Consensus       119 ----------~~A~krpvsSEelIKyAHrIS~~NaVsAPLTW~~G-DprR----PyPtd~EmR~GLlGk  172 (272)
T KOG4552|consen  119 ----------KEAEKRPVSSEELIKYAHRISKHNAVSAPLTWQMG-DPRR----PYPTDHEMRAGLLGK  172 (272)
T ss_pred             ----------HHHhcCCCCHHHHHHHHHHhhhcccccCccccccC-CCCC----CCCchhHHhccCccc
Confidence                      689999999999999999999866  999999999 9999    999999999999984

>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=99.96  E-value=4.2e-29  Score=225.34  Aligned_cols=137  Identities=31%  Similarity=0.387  Sum_probs=124.5

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccCCCC
Q 044000          133 EIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGGD  212 (420)
Q Consensus       133 eil~lf~s~QtqL~eAV~ELQE~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yqa~KRlKs~~~~  212 (420)
                      +++..|..+|.+|.+.+++|++|++++++|++|++|++++|..|++++++|++|++.|.++++     +.+++++.    
T Consensus         2 ~~~~~L~~~d~~L~~~L~~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~-----~~~~~~~~----   72 (188)
T PF10018_consen    2 ELAEDLIEADDELSSALEELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPD-----QADEKLKS----   72 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----Hhhhcccc----
Confidence            688999999999999999999999999999999999999999999999999999999999993     23234333    


Q ss_pred             CCCCCCCCcccccccCCChHHHHHHHhhhhcccCC----------CCCCCCCCCCCCCCCCCCCcHHHHhhhhhhhcccc
Q 044000          213 GNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFA----------PPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADL  282 (420)
Q Consensus       213 ~~~e~~~~~~~A~~~~V~~eDLIsYAHRIS~TTsA----------Pp~wqpGq~PlR~~~PPaPQEeeMRaG~L~~~Adl  282 (420)
                              +.++++++|+++|||+||||||++|+|          |.+|.+| +|...+++|||+|++||+|+|+.++.+
T Consensus        73 --------~~~~~~~~v~~~eLL~YA~rISk~t~~p~~~~~~~~~P~~~~~~-~~~~~~~~PwP~Ed~mR~G~L~~~~~~  143 (188)
T PF10018_consen   73 --------IPKAEKRPVDYEELLSYAHRISKFTSAPPTFPSGSIAPNNWQPG-PPSGDFFRPWPQEDQMRRGMLAQLQLL  143 (188)
T ss_pred             --------ccccccCCCCHHHHHHHHHHHHHhcCCCCCCCCCCcCCcccccc-cccccccCCCCCHHHHHHhHHHhhhhh
Confidence                    357789999999999999999999999          9999999 999999999999999999999999887


Q ss_pred             cCCCc
Q 044000          283 DVGLP  287 (420)
Q Consensus       283 ~vg~p  287 (420)
                      ..++.
T Consensus       144 ~~~~~  148 (188)
T PF10018_consen  144 AEEGI  148 (188)
T ss_pred             hhcCC
Confidence            76443

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=94.75  E-value=0.59  Score=42.80  Aligned_cols=92  Identities=16%  Similarity=0.210  Sum_probs=73.4

Q ss_pred             chHHHHHHHHHHHhhhhhhcccCCcchhhhhcccCcccccccCCCCCCCCCCCCCchhHHHHHHHHHhhHHHHHHHHHHH
Q 044000           73 LPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAEL  152 (420)
Q Consensus        73 l~raq~ll~~ma~las~lfe~s~nr~~w~~~~rgslptfl~s~~~~~~~~p~~~~~~s~keil~lf~s~QtqL~eAV~EL  152 (420)
                      .-|...|...+-||--+++||-                   +... .  .| ......+++|-.+|.+.+    -.++++
T Consensus        71 ~d~~~eLkkL~~sll~nfleLl-------------------~~l~-~--~P-~~~~~ki~~i~~L~~Nmh----hllNey  123 (162)
T PF05983_consen   71 VDRKKELKKLNKSLLLNFLELL-------------------DILS-K--NP-SQYERKIEDIRLLFINMH----HLLNEY  123 (162)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT-------------------TSS------C-CCHHHHHHHHHHHHHHHH----HHHHHT
T ss_pred             chHHHHHHHHHHHHHHHHHHHH-------------------HHHH-h--CC-ccHHHHHHHHHHHHHHHH----HHHHHh
Confidence            5799999999999999999964                   1111 0  11 344557777777776654    567889


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 044000          153 QEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLD  191 (420)
Q Consensus       153 QE~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld  191 (420)
                      +-||-++.-|.-|+++|+.|.+.|.++.+.+.+|+..|+
T Consensus       124 RPhQARetLi~~me~Ql~~kr~~i~~i~~~~~~~~~~le  162 (162)
T PF05983_consen  124 RPHQARETLIMMMEEQLEEKREEIEEIRKVCEKAREVLE  162 (162)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999885

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.

>PRK11637 AmiB activator; Provisional

Probab=88.95  E-value=2.9  Score=42.62  Aligned_cols=38  Identities=18%  Similarity=0.361  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhh
Q 044000          159 QDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDD  196 (420)
Q Consensus       159 Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD  196 (420)
                      +++|..++++|......|.++.++|++.+..|...+..
T Consensus        95 ~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra  132 (428)
T PRK11637         95 QNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDA  132 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555556666666666666666666666666665543

>PF14817 HAUS5: HAUS augmin-like complex subunit 5

Probab=85.63  E-value=1.8  Score=47.51  Aligned_cols=53  Identities=21%  Similarity=0.306  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhccccc
Q 044000          150 AELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRR  202 (420)
Q Consensus       150 ~ELQE~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yqa  202 (420)
                      .++++..+++++|++|+.||...|+.|....+++..-|..++.++++..+++.
T Consensus        76 ~~~~~r~~L~~everLraei~~l~~~I~~~e~e~~~~e~~~~q~~~~~~~~~~  128 (632)
T PF14817_consen   76 NEARRRRELEKEVERLRAEIQELDKEIESREREVSRQEASREQMLDKISDSRH  128 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666677777777777777777777777777777777766666555544

>PF10417 1-cysPrx_C: C-terminal domain of 1-Cys peroxiredoxin; InterPro: IPR019479 This entry represents the C-terminal domain of 1-Cys peroxiredoxin, a member of the peroxiredoxin superfamily which protect cells against membrane oxidation through glutathione (GSH)-dependent reduction of phospholipid hydroperoxides to corresponding alcohols []

Probab=84.17  E-value=0.41  Score=34.90  Aligned_cols=18  Identities=50%  Similarity=1.075  Sum_probs=12.5

Q ss_pred             CCCCCCCCCCCCCCCCCC
Q 044000          347 PPPGWKPGDAVPLPPLDA  364 (420)
Q Consensus       347 pPpgWKpGDPi~lpp~~~  364 (420)
                      -|.+|+|||.+-+||--+
T Consensus        12 tPanW~pGd~~ivpp~~s   29 (40)
T PF10417_consen   12 TPANWKPGDDVIVPPPVS   29 (40)
T ss_dssp             BCTTTCTTSGEBE-TTSS
T ss_pred             cCcCCCCCCCeEcCCCCC
Confidence            577888888888766543

The C-terminal domain is crucial for providing the extra cysteine necessary for dimerisation of the whole molecule. Loss of the enzyme's peroxidase activity is associated with oxidation of the catalytic cysteine found upstream of this domain. Glutathionylation, presumably through its disruption of protein structure, facilitates access for GSH, resulting in spontaneous reduction of the mixed disulphide to the sulphydryl and consequent activation of the enzyme []. The domain is associated with IPR000866 from INTERPRO, which carries the catalytic cysteine. ; GO: 0051920 peroxiredoxin activity, 0055114 oxidation-reduction process; PDB: 1ZOF_E 2H01_A 3EMP_D 1YF1_G 1YF0_D 1N8J_C 1YEP_D 1YEX_D 2V41_H 2V32_C ....

>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown

Probab=83.53  E-value=5.8  Score=42.37  Aligned_cols=124  Identities=31%  Similarity=0.437  Sum_probs=72.3

Q ss_pred             hhccCC-CchHHHH---HHHHHHHhhhhhhcccC--CcchhhhhcccCcccccccCCCCCCCCCCCCCchhHHHHHHHHH
Q 044000           66 LLSLLP-PLPRAQA---LLLQMASLASKLFEVSP--NRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFT  139 (420)
Q Consensus        66 ll~llp-pl~raq~---ll~~ma~las~lfe~s~--nr~~w~~~~rgslptfl~s~~~~~~~~p~~~~~~s~keil~lf~  139 (420)
                      -+.||- +--|.+-   |+..-|=|..||.|++-  +-.+-++.|-. .|+-|.+++.    --+..--..+.+|++.|+
T Consensus       343 a~tlLe~~~~R~~fldeL~EL~aFL~qRl~El~~~~~~~l~~~~~~~-ap~~lq~~t~----~~i~~ml~~V~~ii~~Lt  417 (507)
T PF05600_consen  343 ALTLLENPETRNQFLDELLELEAFLKQRLYELSNEESSSLSFSQFQN-APSILQQQTA----ESIEEMLSAVEEIISQLT  417 (507)
T ss_pred             hhhhcCCHhHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHhhh-ccHHHHhcCH----HHHHHHHHHHHHHHHHhc
Confidence            346777 8888774   56666889999999983  23333333332 3555554431    222334456677788888


Q ss_pred             hhHHH-HH----------HHHHHHHHHHHH-----------HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Q 044000          140 SLQTQ-LF----------EAVAELQEILDL-----------QDAKQKIAREIKAKDSAILAFANKIKEAERVLDILV  194 (420)
Q Consensus       140 s~Qtq-L~----------eAV~ELQE~l~l-----------Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~V  194 (420)
                      +.+++ |+          ..+..|+..++.           +++++.++.|+.+....+..+.++=|+.+..++..|
T Consensus       418 ~~~~~~L~~Ik~SprYvdrl~~~L~qk~~~~~k~~~~~~~l~~kr~e~~~e~~~l~pkL~~l~~~Tr~Lq~~iE~~I  494 (507)
T PF05600_consen  418 NPRTQHLFMIKSSPRYVDRLVESLQQKLKQEEKLRRKREDLEEKRQEAQEEQQELEPKLDALVERTRELQKQIEADI  494 (507)
T ss_pred             CHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            88877 22          223333333222           444555666666666666666666666666666654

>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function

Probab=83.23  E-value=3.7  Score=37.13  Aligned_cols=46  Identities=26%  Similarity=0.359  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 044000          147 EAVAELQEILDL-QDAKQKIAREIKAKDSAILAFANKIKEAERVLDI  192 (420)
Q Consensus       147 eAV~ELQE~l~l-Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~  192 (420)
                      .-+.|+|..++- +..+++|+.|++.||..|..+-++|.++.+.=..
T Consensus        80 a~~~e~qsli~~yE~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~  126 (131)
T PF04859_consen   80 AEIQEQQSLIKTYEIVVKKLEAELRAKDSEIDRLREKLDELNRANKS  126 (131)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455444443 7778899999999999999999999999865443

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=83.07  E-value=7  Score=38.87  Aligned_cols=64  Identities=17%  Similarity=0.320  Sum_probs=34.3

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Q 044000          131 IKEIIACFTSLQTQLFEAVAELQEILDL-----QDAKQKIAREIKAKDSAILAFANKIKEAERVLDILV  194 (420)
Q Consensus       131 ~keil~lf~s~QtqL~eAV~ELQE~l~l-----Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~V  194 (420)
                      +.+++.-+..+...|.+.+..|++...-     +.+++++++++...+..|..+.++|.+.+.-|..+-
T Consensus       175 l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~  243 (325)
T PF08317_consen  175 LDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELE  243 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555555555555554432     555666666666666666655555555555554443

>PRK11637 AmiB activator; Provisional

Probab=81.38  E-value=13  Score=37.86  Aligned_cols=37  Identities=8%  Similarity=0.048  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Q 044000          159 QDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVD  195 (420)
Q Consensus       159 Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~Vd  195 (420)
                      +++|..++++|...+..|..+.+++++.+..|+..-+
T Consensus        88 ~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         88 SRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666666666666666666666666666666543

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=80.67  E-value=21  Score=33.21  Aligned_cols=72  Identities=18%  Similarity=0.313  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhccccc
Q 044000          131 IKEIIACFTSLQTQLFEAVAELQ-EILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRR  202 (420)
Q Consensus       131 ~keil~lf~s~QtqL~eAV~ELQ-E~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yqa  202 (420)
                      ++++++.+++-..++|+-....+ |...++++++.++.+|..-=..+-.+.++-+.|..-|..+-.+|..|-.
T Consensus         4 i~~ti~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE   76 (159)
T PF05384_consen    4 IKKTIDTIESSKEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSE   76 (159)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCH
Confidence            57888888888899888776654 5556699999999999999999999999999999999999888887744

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=80.22  E-value=24  Score=28.73  Aligned_cols=62  Identities=21%  Similarity=0.333  Sum_probs=48.5

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Q 044000          134 IIACFTSLQTQLFEAVAELQEI----LDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVD  195 (420)
Q Consensus       134 il~lf~s~QtqL~eAV~ELQE~----l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~Vd  195 (420)
                      +...+..++.++.+...|-+..    ++....|.+|++.+...+..|..+.+++.+.+..++.+-+
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~   68 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEE   68 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556777887777766665443    3336778889999999999999999999999999988753

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	420
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-13

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 70.3 bits (171), Expect = 4e-13
 Identities = 73/472 (15%), Positives = 132/472 (27%), Gaps = 129/472 (27%)

Query: 3   QHQIVQSPARLGLTNPNSP----SLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGT 58
           Q ++VQ      L   N       ++     PS            L +     A      
Sbjct: 75  QEEMVQKFVEEVL-RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY---- 129

Query: 59  TACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQA-- 116
                         + R Q        L   L E+ P +++ I    GS  T+++     
Sbjct: 130 -------------NVSRLQ----PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL 172

Query: 117 ----QSQPPPPI-------DSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKI 165
               Q +    I        +SP T+ E+      LQ  L++         D     +  
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEM------LQKLLYQIDPNWTSRSDHSSNIKLR 226

Query: 166 AREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTV 225
              I+A+   +L    K K  E  L +L  +  +    K   +           SC   +
Sbjct: 227 IHSIQAELRRLL----KSKPYENCLLVL-LNVQN---AKAWNAFNL--------SCKILL 270

Query: 226 ESR-LNLSDILSYAHRISYT------TFAPPE----FG--AGQGPLRGALPP-----APQ 267
            +R   ++D LS A     +      T  P E            P    LP       P+
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP--QDLPREVLTTNPR 328

Query: 268 EEQMRASQLYTFAD-----LDVGLPKVVETKEKTIEAIIEPPPLQPVDANPL-KDLAGLL 321
              + A  +            V   K+    E ++        L+P +   +   L+ + 
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV------LEPAEYRKMFDRLS-VF 381

Query: 322 PPNITVPSG-----WKPGMPVELPKDF-------PLVPPPGWKPGDAVPLPPLDALPMPR 369
           PP+  +P+      W   +                LV          + +P +      +
Sbjct: 382 PPSAHIPTILLSLIWF-DVIKSDVMVVVNKLHKYSLV--EKQPKESTISIPSIYLELKVK 438

Query: 370 IEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGS-SEDDG 420
           +E +         LH+             I+D  +    + S++      D 
Sbjct: 439 LENE-------YALHR------------SIVDHYNIPKTFDSDDLIPPYLDQ 471

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	420
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	95.21
2l5g_B	42	Putative uncharacterized protein NCOR2, G protein	91.19
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	88.45
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	87.33
3gp4_A	142	Transcriptional regulator, MERR family; structural	84.52
1zxa_A	67	CGMP-dependent protein kinase 1, alpha isozyme; pa	82.03
1ykh_A	108	RNA polymerase II mediator complex protein MED7; g	81.17
2k48_A	107	Nucleoprotein; viral protein; NMR {Andes virus}	80.44

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=95.21  E-value=0.032  Score=44.86  Aligned_cols=48  Identities=23%  Similarity=0.332  Sum_probs=39.2

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 044000          138 FTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAER  188 (420)
Q Consensus       138 f~s~QtqL~eAV~ELQE~l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~  188 (420)
                      +..+|..|.+++.|++..   +..|+.|+++|.+||..|+.|.++|..-+.
T Consensus        21 i~eLq~~L~~K~eELr~k---d~~I~eLEk~L~ekd~eI~~LqseLDKfrS   68 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQR---DALIDELELELDQKDELIQMLQNELDKYRS   68 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            677788888888887554   778999999999999999999998865443

>2l5g_B Putative uncharacterized protein NCOR2, G protein pathway suppressor 2; GPS2, SMRT, TBL1, CO-repressor, transcription regulator; NMR {Homo sapiens}

Probab=91.19  E-value=0.44  Score=35.02  Aligned_cols=32  Identities=22%  Similarity=0.311  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 044000          158 LQDAKQKIAREIKAKDSAILAFANKIKEAERV  189 (420)
Q Consensus       158 lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~  189 (420)
                      +=++|+++.+||..-.+.|..|+++|++.|..
T Consensus         7 l~qkI~kVdrEI~Kte~kI~~lqkKlkeLee~   38 (42)
T 2l5g_B            7 LIQNMDRVDREITMVEQQISKLKKKQQQLEEE   38 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45789999999999999999999999998854

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=88.45  E-value=1  Score=47.29  Aligned_cols=139  Identities=18%  Similarity=0.219  Sum_probs=95.9

Q ss_pred             ccccchhhccCCCchHHHHHH--------HHHHHhhhhhhcccCCcchhhhhcccCcccccccCCCCCCCCCCCCCchhH
Q 044000           60 ACTSSTLLSLLPPLPRAQALL--------LQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTI  131 (420)
Q Consensus        60 ~~~s~~ll~llppl~raq~ll--------~~ma~las~lfe~s~nr~~w~~~~rgslptfl~s~~~~~~~~p~~~~~~s~  131 (420)
                      .|...-+=.|-|===|-|-||        ..|.-|-++|++++-|+.-=                           -+-+
T Consensus        35 fCaDeDwGvkCPSGCrLQglLdkqErDltkrINELKnqLEdlsKnsKds---------------------------eqy~   87 (562)
T 3ghg_A           35 FCSDEDWNYKCPSGCRMKGLIDEVNQDFTNRINKLKNSLFEYQKNNKDS---------------------------HSLT   87 (562)
T ss_dssp             BCCSSSBTTEEECHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHH---------------------------HHHH
T ss_pred             cccccccCCCCCcccchhhhHHhhcCcHHHHHHHHHHHHHHHHhhchhH---------------------------HHHH
Confidence            455555556666666777665        45788889999996665421                           1225


Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccCC
Q 044000          132 KEIIACFTSLQTQLFEAVAELQEIL-DLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEG  210 (420)
Q Consensus       132 keil~lf~s~QtqL~eAV~ELQE~l-~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yqa~KRlKs~~  210 (420)
                      +++...|...|++-.+-...+.+.- +|++.|+.|+++|..+-..|+.|++.|++-...+.++=-|.+   .  |+..- 
T Consensus        88 k~~~E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDId---i--qirsC-  161 (562)
T 3ghg_A           88 TNIMEILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDID---I--KIRSC-  161 (562)
T ss_dssp             HHHHHTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H--HHHHG-
T ss_pred             HHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H--HHHhc-
Confidence            7788888888888777777666666 889999999999999999999999998887766655432222   1  22221 


Q ss_pred             CCCCCCCCCCcccccccCCChHHHHHHH
Q 044000          211 GDGNDDDSGSCSTTVESRLNLSDILSYA  238 (420)
Q Consensus       211 ~~~~~e~~~~~~~A~~~~V~~eDLIsYA  238 (420)
                             -+.|.++...+|+.++-..+=
T Consensus       162 -------KgsCsr~~~~~vd~~sY~~~Q  182 (562)
T 3ghg_A          162 -------RGSCSRALAREVDLKDYEDQQ  182 (562)
T ss_dssp             -------GGTBSCCCCCCCCHHHHHHHH
T ss_pred             -------cccccchheeecchHHHHHHH
Confidence                   134888888999876654443

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=87.33  E-value=1.6  Score=35.10  Aligned_cols=46  Identities=24%  Similarity=0.444  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 044000          156 LDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYR  201 (420)
Q Consensus       156 l~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~VdD~~~yq  201 (420)
                      .++|..++.-..||..||..|..+.++|.+=+..+..+-.+.+.||
T Consensus        22 ~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~LqseLDKfr   67 (72)
T 3nmd_A           22 RDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYR   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4557777888888999999999999999998888888766665554

>3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA-BI transcription regulator, PSI-2; 1.85A {Listeria monocytogenes str}

Probab=84.52  E-value=6.3  Score=33.56  Aligned_cols=33  Identities=15%  Similarity=0.179  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 044000          159 QDAKQKIAREIKAKDSAILAFANKIKEAERVLD  191 (420)
Q Consensus       159 Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld  191 (420)
                      +++++.|+++|+.....+..+..++..++..+.
T Consensus        87 ~~~~~~l~~~i~~L~~~~~~L~~~i~~~~~~~~  119 (142)
T 3gp4_A           87 KKQRIELKNRIDVMQEALDRLDFKIDNYDTHLI  119 (142)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444554444444444444444444443

>1zxa_A CGMP-dependent protein kinase 1, alpha isozyme; parallel coiled coil dimer, transferase; NMR {Homo sapiens}

Probab=82.03  E-value=1.6  Score=34.63  Aligned_cols=36  Identities=14%  Similarity=0.371  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Q 044000          159 QDAKQKIAREIKAKDSAILAFANKIKEAERVLDILV  194 (420)
Q Consensus       159 Q~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~V  194 (420)
                      +-.|..|+.+++.||..|+.+.++|.....+|....
T Consensus        24 de~I~eLE~~L~~kd~eI~eLr~~LdK~qsVl~~~~   59 (67)
T 1zxa_A           24 EERIKELEKRLSEKEEEIQELKRKLHKCQSVLPVPS   59 (67)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            556788999999999999999999998888887543

>1ykh_A RNA polymerase II mediator complex protein MED7; gene regulation; 3.00A {Saccharomyces cerevisiae} SCOP: a.252.1.2 PDB: 1yke_A

Probab=81.17  E-value=13  Score=31.62  Aligned_cols=88  Identities=16%  Similarity=0.175  Sum_probs=68.4

Q ss_pred             HHHHHHHHHhhhhhhcccCCcchhhhhcccCcccccccCCCCCCCCCCCCCchhHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 044000           77 QALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEIL  156 (420)
Q Consensus        77 q~ll~~ma~las~lfe~s~nr~~w~~~~rgslptfl~s~~~~~~~~p~~~~~~s~keil~lf~s~QtqL~eAV~ELQE~l  156 (420)
                      +.|....-||.-+++|+--.=..                .     |  .....++++|--+|.+..-    .+++|+-||
T Consensus        20 ~ELkkLn~SlL~nfLeLl~~l~~----------------~-----P--~~~~~kv~di~~lfiNmHh----LlNeyRPhQ   72 (108)
T 1ykh_A           20 QELRKLLKSLLLNYLELIGVLSI----------------N-----P--DMYERKVENIRTILVNIHH----LLNEYRPHQ   72 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSSCC----------------C-----G--GGHHHHHHHHHHHHHHHHH----HHHHTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhh----------------C-----C--chHHHHHHHHHHHHHHHHH----HHHHhChHH
Confidence            47888888999998887432111                0     1  1235677777777777654    457999999


Q ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 044000          157 DLQDAKQKIAREIKAKDSAILAFANKIKEAERVLD  191 (420)
Q Consensus       157 ~lQ~eIq~Lk~EIe~kD~~I~~lakkLKeAE~~Ld  191 (420)
                      -++.-|.-|+..|+.|.+.|.++-+...+++..|+
T Consensus        73 ARetL~~~le~Qi~~kr~e~~~i~~~~~~~~~~L~  107 (108)
T 1ykh_A           73 SRESLIMLLEEQLEYKRGEIREIEQVCKQVHDKLT  107 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999998875

>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}

Probab=80.44  E-value=15  Score=31.45  Aligned_cols=65  Identities=25%  Similarity=0.316  Sum_probs=50.4

Q ss_pred             chhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Q 044000          128 PSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQK-----IAREIKAKDSAILAFANKIKEAERVLDILVD  195 (420)
Q Consensus       128 ~~s~keil~lf~s~QtqL~eAV~ELQE~l~lQ~eIq~-----Lk~EIe~kD~~I~~lakkLKeAE~~Ld~~Vd  195 (420)
                      -++++|+..-++....||..|-.+|++-   ++..+.     =++-+..|-..+..++.||.+-++.|...|.
T Consensus        34 M~~ieeLQ~Ei~~~E~QL~iArQKLkdA---e~~~E~DPDevNK~tl~~R~~~Vsalq~KiaeLKrqLAd~va  103 (107)
T 2k48_A           34 MSTLQELQENITAHEQQLVTARQKLKDA---EKAVEVDPDDVNKSTLQNRRAAVSTLETKLGELKRQLADLVA  103 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4689999999999999999988777544   222222     2456777888899999999999999888774

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00