Citrus Sinensis ID: 013167

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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-------430-------440-------45
Protein Sequence
MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRVELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDHVSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccHHHcHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHcccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEEcccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
msmksgsldnWRNYFrsangdifdIIDHAVMVAALDCPKEFKLRRDRIAEKLFTckltrcsgcdrvelavpsgnefdddeedckrdgcefeaggskeskvnscrddhvsnqivsnfssgdIAEALTDEIEEESQVVGEVLRIKEILhnsrdesdSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIaegtpdsvnpsvvdeeeglpsppldelafftgpsagielsqffdgmddfgnprnsgefiknresgrkpsvenqniakrkqqtpnepnvlakdnnslqmkrqeavvrpnkpsnkpsstnsgpgrplkqnmgqkvdnesklqqksdkaainkkplnsqhnklkssdeDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMElhdlpkqglgnrnpqlrpgnynrhwangrr
Flexible Loop (DISEMBL)
MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKlftckltrcsgcdrvelavpsgnefdddeedCKRDGCEFeaggskeskvnscRDDHVSnqivsnfssgDIAEALTDEIEEESQVVGEVLRIKeilhnsrdesdsVLFESLRRLQLMALTVDTLKATEIGKavnglrkhgskqIRHLARTLIEGWKDLVDEWVNATKaiaegtpdsvnpsvVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGefiknresgrkpsvenqniakrkqqtpnepnvlakdnnslqMKRQeavvrpnkpsnkpsstnsgpgrplkqNMGQKVDNESKlqqksdkaainkkplnsqhnklkssdedaVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHdlpkqglgnrnpqlrpgnynrhwangrr
Low Complexity Region (SEG)
MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRVELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDHVSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRpnkpsnkpsstnsgpgRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR
Disordered region (IsUnstruct)
*********NWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRVELAV***************************************************************QVVGEVLRIKEILHN*****DSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIA*************************LAFFTGPSAGIELSQFFD*****************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
******S***WRNYFRSANGDIFDIIDHAVMVAALD*********DRIAEKLFTCKLTRCSG**************************************************************************GEVLRIKEILHN******SVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVD**********************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
********DNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRVELAVPSGN**********RDGCEF*************RDDHVSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQM**************************LKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR
Disordered Region (DISPRO)
*****GSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRV********************************************************E*****IEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNA************************************************************************************************************************************************************************EDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPK************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCDRVELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDHVSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVxxxxxxxxxxxxxxxxxxxxxxxxRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR
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	448	2.2.26 [Sep-21-2011]
Q9FHK9	436	Probable mediator of RNA	yes	no	0.926	0.951	0.536	1e-114
F4J4Y5	580	Probable mediator of RNA	no	no	0.868	0.670	0.445	4e-81
F4KFC7	353	Probable mediator of RNA	no	no	0.734	0.932	0.268	5e-25
P23881	347	Transcription elongation	yes	no	0.160	0.207	0.407	8e-06
O75764	348	Transcription elongation	yes	no	0.160	0.206	0.394	1e-05
Q2KI09	349	Transcription elongation	yes	no	0.160	0.206	0.394	2e-05
Q15560	299	Transcription elongation	no	no	0.111	0.167	0.431	0.0002
Q9QVN7	299	Transcription elongation	no	no	0.142	0.214	0.384	0.0003
Q63799	299	Transcription elongation	no	no	0.142	0.214	0.384	0.0003
Q148K0	300	Transcription elongation	no	no	0.111	0.166	0.431	0.0003

>sp|Q9FHK9|MD26B_ARATH Probable mediator of RNA polymerase II transcription subunit 26b OS=Arabidopsis thaliana GN=MED26B PE=2 SV=1

 Score =  412 bits (1059), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 248/462 (53%), Positives = 302/462 (65%), Gaps = 47/462 (10%)

Query: 5   SGSLDNWRNYFRS-ANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGC 63
           SGSLD+WR YFR   + DIF IIDHA+MVAA DCP +FK RRD+IAE LF+C++ RC GC
Sbjct: 4   SGSLDSWREYFRRRGDSDIFGIIDHAIMVAATDCPNKFKSRRDKIAELLFSCRVNRCVGC 63

Query: 64  DRVELAVPSGNEFDDDEEDCKRDGCEFE-----AGGSKESKVNSCRDDHVSNQIVSNFSS 118
           D +EL+VP  +E +         G   +     AGGSKESK NS R D+  NQIVSN++ 
Sbjct: 64  DHLELSVPGDDEANRGTTGNGGGGTAVDEDYEVAGGSKESKANSSRGDN--NQIVSNYTF 121

Query: 119 GDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATE 178
            D AEAL+DEIEE S V  EV RIKEIL N  DE +SVL +SLR L+LM+L VD LK+TE
Sbjct: 122 -DEAEALSDEIEEFSVVSKEVARIKEILLNKEDEPNSVLLDSLRHLKLMSLNVDILKSTE 180

Query: 179 IGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAI--AEGTPDSVNPSVVDEEE 236
           IGKAVNGLRKH S +IR LA+TLI  WK+LVD+WVN TK I  AEGTP+S NPSV+DEEE
Sbjct: 181 IGKAVNGLRKHSSDKIRQLAKTLIAEWKELVDQWVNTTKEITGAEGTPESANPSVLDEEE 240

Query: 237 GLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAK 296
             PS P D +  FT    G E+S FFD +D  GNPRNS E   +RE  R+P    QNIAK
Sbjct: 241 AFPSLPYD-VDIFTPEPNGFEISHFFDSLDFDGNPRNSEEHNTSREHERRP----QNIAK 295

Query: 297 RKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNES 356
           RK +               QM+ Q+A  R  KPS+  ++   G  RP+KQ+  Q++ NE+
Sbjct: 296 RKPE-------------GTQMRIQDAPFRSIKPSS--ATDFDGTRRPVKQSTEQRMKNET 340

Query: 357 KLQQKSDKAAINKKPLNS---------QHNKLKSSDEDAVQVKLEATKRKLQESYQLAEN 407
               KS+K  I +KP+ +         Q  KLK  D DA   K E  KRKLQESYQ  EN
Sbjct: 341 VSVHKSEKPMIQRKPVVTEQKRKAPGPQQEKLKGLDADA---KFEFAKRKLQESYQHHEN 397

Query: 408 AKKQRTIQVMELHDLPKQGLGNRNPQL-RPGNYNRHWANGRR 448
           AKKQRTIQV+E+  +PKQG   + PQL RPG  NR+WANGR+
Sbjct: 398 AKKQRTIQVLEM--IPKQGSAQK-PQLKRPGMSNRNWANGRK 436

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). May play a role in transcription elongation (By similarity).
Arabidopsis thaliana (taxid: 3702)

>sp|F4J4Y5|MD26A_ARATH Probable mediator of RNA polymerase II transcription subunit 26a OS=Arabidopsis thaliana GN=MED26A PE=2 SV=1

 Score =  302 bits (773), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 200/449 (44%), Positives = 256/449 (57%), Gaps = 60/449 (13%)

Query: 5   SGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSGCD 64
           S SLD WR YFR  + DIF IIDHA+MVAA D PKEFK R DRIAE LF+CK++RC GCD
Sbjct: 7   SVSLDTWREYFRRGDSDIFGIIDHAIMVAAADWPKEFKSRSDRIAELLFSCKVSRCIGCD 66

Query: 65  RVELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDHVSNQIVSNFSSGDIAEA 124
            +EL++ +G+E                                V    V        +  
Sbjct: 67  HLELSI-AGDE------------------------------AAVEIVGVGGGGDRGDSGV 95

Query: 125 LTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVN 184
            T E EE S  V EV+RI++IL N  DE DSVL ESLR+L+ M+++VD LK TEIGKAVN
Sbjct: 96  ATGEGEEASVSVDEVMRIRDILSNKDDEKDSVLLESLRKLESMSMSVDILKDTEIGKAVN 155

Query: 185 GLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIA--EGTPDSVNPSVVDEEEGLPSPP 242
           GLR+H S +I  LA+TL   WK LVD+W+N  + +A  EGTP+S+N SV+DEEE  PSPP
Sbjct: 156 GLRRHSSDKISKLAKTLFAEWKRLVDQWMNTPEEMAGTEGTPESLNLSVIDEEEAFPSPP 215

Query: 243 LDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTP 302
            D L  +     G ELSQ  D +D  GNPR+S E    R+S        Q+ A R+ +  
Sbjct: 216 HD-LDIYAPEPNGFELSQILDCLDCDGNPRHSVESKHERKS--------QSSAGRRPKGT 266

Query: 303 NEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKS 362
           N+ NV+ +  N  Q +R+EA VRP K S   ++    P R  KQ+  Q V   S +Q+K 
Sbjct: 267 NDANVVGRYCNDQQTRREEADVRPMKHS---ATDVVEPKRQTKQSREQMV---SAIQRKP 320

Query: 363 DKAAINKKPL-NSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHD 421
                 K+ L   Q +KLK+ D D+   K E  KRKLQESY   ENAK+QRTIQV+E   
Sbjct: 321 TAVTEQKRKLAGPQQDKLKALDPDS---KFEFAKRKLQESYHQHENAKRQRTIQVLE--T 375

Query: 422 LPKQGLGNRNPQL-RPGN----YNRHWAN 445
           +PKQ    + PQL RP      Y   W++
Sbjct: 376 IPKQN-KVQKPQLKRPATRRYIYWYFWSS 403

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). May play a role in transcription elongation (By similarity).

Arabidopsis thaliana (taxid: 3702)

>sp|F4KFC7|MD26C_ARATH Probable mediator of RNA polymerase II transcription subunit 26c OS=Arabidopsis thaliana GN=MED26C PE=2 SV=1

 Score =  115 bits (289), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 123/458 (26%), Positives = 190/458 (41%), Gaps = 129/458 (28%)

Query: 8   LDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLT-RCSGCDRV 66
           LD++R+   +A  D++  ID A++VA+LD  +E K RRD I E+L+   +  +C  CD  
Sbjct: 3   LDDFRSVMDNAGVDVWTFIDTAILVASLDYGQELKRRRDNIVERLYATSMANKCRNCD-- 60

Query: 67  ELAVPSGNEFDDDEEDCKRDGCEFEAGGS-KESKVNSCRDDHVSNQIVSNFSSGDIAEAL 125
                                  F  GG+  E+ +    +  V  +       G +  A 
Sbjct: 61  -----------------------FGGGGNVTEAAIGRVNNGRVHEETEEEDEEG-VTAAA 96

Query: 126 TDEIEEESQVVGE-----------------VLRIKEILHNSRDESDSVLFESLRRLQLMA 168
            +E+ E+S  V +                 ++ IKE L +  D S+  L E L+ L+ M 
Sbjct: 97  EEEVREKSVNVEDDDDFDPFAGLFDDEQKSIVEIKEKLEDP-DLSEESLVELLQNLEDMD 155

Query: 169 LTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVN 228
           +T   L+ T+IG+ VN +RKH S  +R LA+ L++ WK+ VDEWV   +      P  + 
Sbjct: 156 ITFQALQETDIGRHVNRVRKHPSNNVRRLAKQLVKKWKETVDEWVKFNQ------PGDLE 209

Query: 229 PSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPS 288
           P  +  +E  P     + A   G    +          DFG       +    ++G   S
Sbjct: 210 PPSLIADEDSPV----QKALHNGSRQQVP---------DFG-------YSPVPQNGYSSS 249

Query: 289 VENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNM 348
            +N NI         EP               E   RP  P  +P   +  P +P + + 
Sbjct: 250 SKNSNIT--------EP---------------ERKPRPVAP--QPRRESPSPAKPSRPSP 284

Query: 349 GQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENA 408
            Q+                   P + +H   K  D D  + +L       Q++Y+ AENA
Sbjct: 285 SQQT-----------------IPRDKEH---KEVDFDTARKRL-------QQNYRQAENA 317

Query: 409 KKQRTIQVMELHDLPKQGLGNRNPQLRPGNYN---RHW 443
           KKQRTIQVM++HD+PK   G   P  R G  +   RHW
Sbjct: 318 KKQRTIQVMDIHDIPKPKKGGFFP--RKGGSSQGGRHW 353

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). May play a role in transcription elongation (By similarity).

Arabidopsis thaliana (taxid: 3702)

>sp|P23881|TCEA3_MOUSE Transcription elongation factor A protein 3 OS=Mus musculus GN=Tcea3 PE=1 SV=3

 Score = 52.4 bits (124), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 49/76 (64%), Gaps = 4/76 (5%)

Query: 138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
           E+LRI + L    SR +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct: 6   ELLRIAKKLEKMVSRKKTEGAL-DLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query: 195 RHLARTLIEGWKDLVD 210
             LA+ LI+ WK L+D
Sbjct: 65  VSLAKVLIKNWKRLLD 80

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Mus musculus (taxid: 10090)

>sp|O75764|TCEA3_HUMAN Transcription elongation factor A protein 3 OS=Homo sapiens GN=TCEA3 PE=2 SV=2

 Score = 51.6 bits (122), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 4/76 (5%)

Query: 138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
           E+LRI + L    +R  ++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct: 6   ELLRIAKKLEKMVARKNTEGAL-DLLKKLHSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query: 195 RHLARTLIEGWKDLVD 210
             LA+ LI+ WK L+D
Sbjct: 65  VSLAKVLIKNWKRLLD 80

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Homo sapiens (taxid: 9606)

>sp|Q2KI09|TCEA3_BOVIN Transcription elongation factor A protein 3 OS=Bos taurus GN=TCEA3 PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 4/76 (5%)

Query: 138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
           E+LRI + L    +R +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct: 6   ELLRIAKKLEKMVARKKTEGAL-DLLKKLGSWQMSIQLLQTTRIGVAVNGVRKHCSNKEV 64

Query: 195 RHLARTLIEGWKDLVD 210
             LA+ LI  WK L+D
Sbjct: 65  VALAKVLIRNWKQLLD 80

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Bos taurus (taxid: 9913)

>sp|Q15560|TCEA2_HUMAN Transcription elongation factor A protein 2 OS=Homo sapiens GN=TCEA2 PE=1 SV=1

 Score = 47.4 bits (111), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 36/51 (70%), Gaps = 1/51 (1%)

Query: 161 LRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIRHLARTLIEGWKDLVD 210
           LR L+ M +T+  L++T +G +VN LRK  S +++  LA++LI+ WK L+D
Sbjct: 31  LRELKAMPITLHLLQSTRVGMSVNALRKQSSDEEVIALAKSLIKSWKKLLD 81

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Homo sapiens (taxid: 9606)

>sp|Q9QVN7|TCEA2_MOUSE Transcription elongation factor A protein 2 OS=Mus musculus GN=Tcea2 PE=2 SV=2

 Score = 47.0 bits (110), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 41/65 (63%), Gaps = 1/65 (1%)

Query: 161 LRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIRHLARTLIEGWKDLVDEWVNATKAI 219
           LR L+ M +T+  L++T +G +VN LRK  S +++  LA++LI+ WK L+D     ++  
Sbjct: 30  LRELKNMPITLHLLQSTRVGMSVNALRKQSSDEELIALAKSLIKSWKKLLDVSDGKSRNQ 89

Query: 220 AEGTP 224
             GTP
Sbjct: 90  GRGTP 94

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Mus musculus (taxid: 10090)

>sp|Q63799|TCEA2_RAT Transcription elongation factor A protein 2 OS=Rattus norvegicus GN=Tcea2 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 41/65 (63%), Gaps = 1/65 (1%)

Query: 161 LRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIRHLARTLIEGWKDLVDEWVNATKAI 219
           LR L+ M +T+  L++T +G +VN LRK  S +++  LA++LI+ WK L+D     ++  
Sbjct: 30  LRELKNMPITLHLLQSTRVGMSVNALRKQSSDEELIALAKSLIKSWKKLLDVSDGKSRDQ 89

Query: 220 AEGTP 224
             GTP
Sbjct: 90  GRGTP 94

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Rattus norvegicus (taxid: 10116)

>sp|Q148K0|TCEA2_BOVIN Transcription elongation factor A protein 2 OS=Bos taurus GN=TCEA2 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 36/51 (70%), Gaps = 1/51 (1%)

Query: 161 LRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIRHLARTLIEGWKDLVD 210
           LR L+ M +T+  L++T +G +VN LRK  S +++  LA++LI+ WK L+D
Sbjct: 31  LRELKAMPVTLHLLQSTRVGMSVNALRKQSSDEEVVTLAKSLIKSWKKLLD 81

Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Bos taurus (taxid: 9913)

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	448
255552481	473	conserved hypothetical protein [Ricinus	0.984	0.932	0.692	1e-179
224089941	483	predicted protein [Populus trichocarpa]	0.984	0.913	0.659	1e-170
224139692	474	predicted protein [Populus trichocarpa]	0.984	0.930	0.661	1e-169
224139684	480	predicted protein [Populus trichocarpa]	0.984	0.918	0.651	1e-168
359481563	521	PREDICTED: uncharacterized protein LOC10	0.970	0.834	0.627	1e-162
449437690	452	PREDICTED: probable mediator of RNA poly	0.975	0.966	0.673	1e-159
356571901	458	PREDICTED: uncharacterized protein LOC10	0.982	0.960	0.612	1e-148
356504664	452	PREDICTED: uncharacterized protein LOC10	0.977	0.969	0.617	1e-146
357509279	447	hypothetical protein MTR_7g089140 [Medic	0.962	0.964	0.605	1e-141
357509283	444	hypothetical protein MTR_7g089140 [Medic	0.966	0.975	0.603	1e-141

>gi|255552481|ref|XP_002517284.1| conserved hypothetical protein [Ricinus communis] gi|223543547|gb|EEF45077.1| conserved hypothetical protein [Ricinus communis]

 Score =  634 bits (1634), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 329/475 (69%), Positives = 380/475 (80%), Gaps = 34/475 (7%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WRNYFR+AN DIF IIDHA+MVAA DCPKEF+LRRDRIAE+LF+C+LTRCSG
Sbjct: 1   MKSVSLDYWRNYFRTANSDIFAIIDHAIMVAASDCPKEFRLRRDRIAERLFSCRLTRCSG 60

Query: 63  CDRVELAVPSGNEFDDDEEDCKR----------------DGCEFEAGG-SKESKVNSC-- 103
           C+ V+LAVP+    +DD   CKR                D CEFEAGG SKESKVNS   
Sbjct: 61  CNHVDLAVPAHEGENDDGGACKRRDDHHVEDDDDDDVDIDVCEFEAGGTSKESKVNSSNN 120

Query: 104 RDDH--------VSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDS 155
           RDD+        V++Q++SNFS G+ AEALTDEIEEES VVGEVLRIK+IL +SRDES+S
Sbjct: 121 RDDNDIDIGEVNVNDQLLSNFSYGE-AEALTDEIEEESMVVGEVLRIKDILLHSRDESES 179

Query: 156 VLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNA 215
           VLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS+QIRHLAR LI+GWK LVDEW + 
Sbjct: 180 VLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSQQIRHLARVLIDGWKVLVDEWYST 239

Query: 216 TKAIA--EGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRN 273
           TKAI   EGTP+SVNPSVVDEE+GLPSPPLDE  FF   + GIEL+QFFDGMDD GNPRN
Sbjct: 240 TKAIRGDEGTPESVNPSVVDEEDGLPSPPLDEAFFFAAQNTGIELAQFFDGMDDDGNPRN 299

Query: 274 SGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKP 333
           SGEFIKNRE+GRK S+E +NI KRK+ TP+E NV+AKDN S Q +RQEA+ +P    NKP
Sbjct: 300 SGEFIKNRENGRKSSLEQKNIPKRKEHTPSEANVVAKDNKSHQSRRQEAMRKP----NKP 355

Query: 334 SSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEA 393
           S+T SGPGRP KQ++ QK +NESK+Q+K+DK    +K    Q +K K SD+DAVQ KLEA
Sbjct: 356 STTVSGPGRPTKQSVEQKANNESKIQRKTDKLVTQRKLPGGQQDKFKCSDDDAVQKKLEA 415

Query: 394 TKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           TKRKLQE YQ AENAK+QRTIQVMELHDLPKQ L  +NP +RPG++NRHWA+GRR
Sbjct: 416 TKRKLQERYQQAENAKRQRTIQVMELHDLPKQALVQKNPNMRPGSHNRHWAHGRR 470

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224089941|ref|XP_002308874.1| predicted protein [Populus trichocarpa] gi|222854850|gb|EEE92397.1| predicted protein [Populus trichocarpa]

 Score =  604 bits (1557), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 320/485 (65%), Positives = 366/485 (75%), Gaps = 44/485 (9%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WRNYFR+A+ DIF IIDHA++VAA DCPKEFKLRRDRIAE+LF+C+L +CSG
Sbjct: 1   MKSVSLDYWRNYFRTASSDIFGIIDHAILVAASDCPKEFKLRRDRIAERLFSCRLIKCSG 60

Query: 63  CDRVELAVPSGNEFDDDEEDC--KR---------------------------DGCEFEAG 93
           C+RVELAVP  +E   D+  C  KR                            G E+E G
Sbjct: 61  CNRVELAVPGHDEGVSDDGGCCSKRRDGDNSGGVGGGGDDDDDDDVDIDIDDGGFEYEGG 120

Query: 94  GSKESKVNSCRDDH--------VSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEI 145
           GSK SKVNS   D+        V++Q+V NFS GD AEALTDEIEE SQ V EVLRIK+I
Sbjct: 121 GSKGSKVNSSNRDNDIDNGEVNVNDQLVYNFSYGD-AEALTDEIEEVSQTVDEVLRIKDI 179

Query: 146 LHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGW 205
           L+NS+DESDSVL ESLR+L+LMALTVDTLKATEIGKAVN LRKHGSKQIR+LARTLIE W
Sbjct: 180 LYNSQDESDSVLLESLRKLRLMALTVDTLKATEIGKAVNVLRKHGSKQIRYLARTLIEDW 239

Query: 206 KDLVDEWVNATKAIA--EGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFD 263
           K LVDEW +   AI   EGTPDSVNPSVVDEEEGLPSPPLDE AFF      +ELSQFFD
Sbjct: 240 KVLVDEWYSTANAIRGDEGTPDSVNPSVVDEEEGLPSPPLDEGAFFATQPTSMELSQFFD 299

Query: 264 GMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAV 323
           GMDD GNPRN GEFIKNRESG++PSVE QN AK+KQ TPN  NVL+KDN S QM+RQEA+
Sbjct: 300 GMDDDGNPRNGGEFIKNRESGQRPSVEKQNFAKQKQHTPNGANVLSKDNKSQQMRRQEAI 359

Query: 324 VRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSD 383
           V+ +KPSN     NSGPGRPL QN+ QK++ E +L +K+DK    +KP   Q +KLK+SD
Sbjct: 360 VKASKPSN----ANSGPGRPLMQNVEQKMNQEPQLIRKTDKITSQRKPPTGQQDKLKNSD 415

Query: 384 EDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHW 443
           E  VQ+KLEATKRKLQE YQ AENAK+QRTIQVMELHDLPKQG   +N  +RPGN NRHW
Sbjct: 416 EVDVQMKLEATKRKLQERYQQAENAKRQRTIQVMELHDLPKQGYVQKNQPIRPGNQNRHW 475

Query: 444 ANGRR 448
           A+GRR
Sbjct: 476 AHGRR 480

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139692|ref|XP_002323230.1| predicted protein [Populus trichocarpa] gi|222867860|gb|EEF04991.1| predicted protein [Populus trichocarpa]

 Score =  602 bits (1552), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 317/479 (66%), Positives = 368/479 (76%), Gaps = 38/479 (7%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WR+YFR+A+ DIF IIDHA++VAA DCPKEFKLRRDRIAE+LF+C+L +CSG
Sbjct: 1   MKSVSLDYWRDYFRTASSDIFGIIDHAILVAASDCPKEFKLRRDRIAERLFSCRLIKCSG 60

Query: 63  CDRVELAVPSGNEFDDDEEDC--KR---------------------DGCEFEAGGSKESK 99
           C++VELAVP  +E + D+  C  KR                      G E+E GGSKESK
Sbjct: 61  CNQVELAVPGHDEDERDDRGCCSKRRDGDNSGSDDDEEEVDIDIDDGGFEYEGGGSKESK 120

Query: 100 VNSCRDDH--------VSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRD 151
           VNS   D+        V++Q+VSNFS G+ AEALTDEIEE SQ V EVLRIK+IL+NS+D
Sbjct: 121 VNSSNRDNDFDNGEVNVNDQLVSNFSFGE-AEALTDEIEEVSQTVDEVLRIKDILYNSQD 179

Query: 152 ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDE 211
           ESDSVL ESLR+L+LMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIE WK LVDE
Sbjct: 180 ESDSVLLESLRKLRLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEDWKVLVDE 239

Query: 212 WVNATKAIA--EGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFG 269
           W +A   I   EGTPDSVNPSVVDEEEGLPSPPLDE AFF      +ELSQFFDGMDD G
Sbjct: 240 WYSAANVIRGNEGTPDSVNPSVVDEEEGLPSPPLDEGAFFATQPTSMELSQFFDGMDDDG 299

Query: 270 NPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKP 329
           NPRN+GEFIKN  S R+PS ENQNI+K+KQQTP   N+ +KDN S QM++QE VV+ +KP
Sbjct: 300 NPRNNGEFIKNHVSRRRPSAENQNISKQKQQTPKGANMPSKDNESQQMRKQEDVVKASKP 359

Query: 330 SNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQV 389
           SN     NSGPGRPLKQN+ QK++ E+ L +K+DK    +KP   Q +KLKSSDE AVQ+
Sbjct: 360 SN----ANSGPGRPLKQNVEQKMNQETVLIRKTDKVTSQRKPPTGQQDKLKSSDEVAVQM 415

Query: 390 KLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           KLEATKRKLQE YQ AE AK+QRTIQVMELHDLPKQG   +N  +R GN+NRHWA+GRR
Sbjct: 416 KLEATKRKLQERYQQAEKAKRQRTIQVMELHDLPKQGHVQKNQPMRLGNHNRHWAHGRR 474

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139684|ref|XP_002323227.1| predicted protein [Populus trichocarpa] gi|222867857|gb|EEF04988.1| predicted protein [Populus trichocarpa]

 Score =  598 bits (1542), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 316/485 (65%), Positives = 368/485 (75%), Gaps = 44/485 (9%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WR+YFR+A+ DIF IIDHA++VAA DCPKEFKLRRDRIAE+LF+C+L +CSG
Sbjct: 1   MKSVSLDYWRDYFRTASSDIFGIIDHAILVAASDCPKEFKLRRDRIAERLFSCRLIKCSG 60

Query: 63  CDRVELAVPSGNEFDDDEEDC--KR---------------------DGCEFEAGGSKESK 99
           C++VELAVP  +E + D+  C  KR                      G E+E GGSKESK
Sbjct: 61  CNQVELAVPGHDEDERDDRGCCSKRRDGDNSGSDDDEEEVDIDIDDGGFEYEGGGSKESK 120

Query: 100 VNSCRDDH--------VSNQIVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRD 151
           VNS   D+        V++Q+VSNFS G+ AEALTDEIEE SQ V EVLRIK+IL+NS+D
Sbjct: 121 VNSSNRDNDFDNGEVNVNDQLVSNFSFGE-AEALTDEIEEVSQTVDEVLRIKDILYNSQD 179

Query: 152 ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDE 211
           ESDSVL ESLR+L+LMALTVDTLKATEIGKAVNGLRKHGS+QIRHLARTLIE WK LVDE
Sbjct: 180 ESDSVLLESLRKLRLMALTVDTLKATEIGKAVNGLRKHGSEQIRHLARTLIEDWKVLVDE 239

Query: 212 WVNATKAIA--------EGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSAGIELSQFFD 263
           W +A   I         EGTPDSVNPSVVDEEEGLPSPPLDE AFF      +ELSQFFD
Sbjct: 240 WYSAANVIRGRNLLASNEGTPDSVNPSVVDEEEGLPSPPLDEGAFFATQPTSMELSQFFD 299

Query: 264 GMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAV 323
           GMDD GNPRN+GEFIKN  S R+PS ENQNI+K+KQQTP   N+ +KDN S QM++QE V
Sbjct: 300 GMDDDGNPRNNGEFIKNHVSRRRPSAENQNISKQKQQTPKGANMPSKDNESQQMRKQEDV 359

Query: 324 VRPNKPSNKPSSTNSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSD 383
           V+ +KPSN     NSGPGRPLKQN+ QK++ E+ L +K+DK    +KP   Q +KLKSSD
Sbjct: 360 VKASKPSN----ANSGPGRPLKQNVEQKMNQETVLIRKTDKVTSQRKPPTGQQDKLKSSD 415

Query: 384 EDAVQVKLEATKRKLQESYQLAENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHW 443
           E AVQ+KLEATKRKLQE YQ AE AK+QRTIQVMELHDLPKQG   +N  +R GN+NRHW
Sbjct: 416 EVAVQMKLEATKRKLQERYQQAEKAKRQRTIQVMELHDLPKQGHVQKNQPMRLGNHNRHW 475

Query: 444 ANGRR 448
           A+GRR
Sbjct: 476 AHGRR 480

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481563|ref|XP_002277659.2| PREDICTED: uncharacterized protein LOC100250012 [Vitis vinifera]

 Score =  577 bits (1486), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 310/494 (62%), Positives = 367/494 (74%), Gaps = 59/494 (11%)

Query: 1   MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRC 60
           M+  SG+LD WRNYFR+AN DIF II+HA++VAA DCPKEF+LRRDRIAE+LF+CKLTRC
Sbjct: 1   MATNSGALDQWRNYFRTANSDIFGIIEHAILVAASDCPKEFRLRRDRIAERLFSCKLTRC 60

Query: 61  SGCDRVELAVPSGNEFDDDEEDCKRDGCEFEA---GGSKESKVNSCRDDH--VSNQIVSN 115
            GCDRVELAVP     ++D   CK    EF+      SKESK NS R+DH  ++   VSN
Sbjct: 61  FGCDRVELAVP-----ENDGGGCK---IEFDMDVNSSSKESKANSIREDHGEMNMNQVSN 112

Query: 116 FSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLK 175
           +S G+ AEALTDEIEEE+Q+ GEVLRI+EIL +S+DESDSVLF+SLRRLQLM L+VD LK
Sbjct: 113 YSYGE-AEALTDEIEEETQIAGEVLRIREILEHSKDESDSVLFDSLRRLQLMVLSVDNLK 171

Query: 176 ATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPS---VV 232
           ATEIGKAVNGLRKHGSKQIR LARTLI+ WKD+VDEWVNAT AIAEGTPDSVNPS     
Sbjct: 172 ATEIGKAVNGLRKHGSKQIRQLARTLIDEWKDMVDEWVNATAAIAEGTPDSVNPSVVDDD 231

Query: 233 DEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQ 292
           D+EEGLP PP+DEL+F T     +ELSQFFDGMDD GNPRN+GEF +NRE+GRKP++ENQ
Sbjct: 232 DDEEGLPFPPMDELSFLTTQPTSLELSQFFDGMDDDGNPRNNGEFNRNRENGRKPALENQ 291

Query: 293 NIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKP----------------SNKPSST 336
           NI+KRKQQ P+E N + KD    Q+K+QE VV+ NKP                 N+PS+T
Sbjct: 292 NISKRKQQLPDEANGVTKDKGQ-QIKKQEPVVKSNKPINTQSGFGRPQEILVRPNRPSNT 350

Query: 337 NSGPGRPLKQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKR 396
           +SGPGRP K  +GQKV+NE+K  QKSDK AI++KP+  Q +K KSS+ED +QVKLEA KR
Sbjct: 351 DSGPGRPPKPGVGQKVNNETKFLQKSDKPAIHRKPVVGQQDKSKSSEEDTIQVKLEAAKR 410

Query: 397 KLQESYQLAEN-------------------------AKKQRTIQVMELHDLPKQGLGNRN 431
           KL E YQ AE+                         AK+QRTIQVMEL DLPKQGLG+RN
Sbjct: 411 KLHERYQQAEDGLSLPLQILDIFLFGHSFKYWSFARAKRQRTIQVMELQDLPKQGLGHRN 470

Query: 432 PQLRPGNYNRHWAN 445
           P +R GN NRHW N
Sbjct: 471 PHIRHGNNNRHWWN 484

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437690|ref|XP_004136624.1| PREDICTED: probable mediator of RNA polymerase II transcription subunit 26b-like [Cucumis sativus]

 Score =  567 bits (1461), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 312/463 (67%), Positives = 355/463 (76%), Gaps = 26/463 (5%)

Query: 1   MSMKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRC 60
           M+ KSGSLD+WRNYFR+AN DIF IID+A++VAA DCPKEF+LRRDRIAE+LF+C+LTRC
Sbjct: 1   MAAKSGSLDSWRNYFRNANSDIFGIIDYAILVAASDCPKEFRLRRDRIAEQLFSCRLTRC 60

Query: 61  SGCDRVELAVPSGNEFDDDE----EDCKRDGCEFEAGGSKESKVNSCRDD--HVSNQIVS 114
            GCDRVELAV    + DD E     D  RDGCEFEAGGSKESKV S RDD   ++   VS
Sbjct: 61  LGCDRVELAVAGDIDGDDGETGFKSDFVRDGCEFEAGGSKESKVYSSRDDIGEMNCNRVS 120

Query: 115 NFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTL 174
           NFS G+ AEALTDEIE+ESQ+VGEVLRIKEIL+N  DESD VLFESLRRL+LMAL+VDTL
Sbjct: 121 NFSFGE-AEALTDEIEQESQIVGEVLRIKEILNNFEDESDPVLFESLRRLELMALSVDTL 179

Query: 175 KATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAI--AEGTPDSVNPSVV 232
           +ATEIGKAVN LRKHGSK+IRHLAR LI  WK++VD WV AT A+  AE TPDS N S  
Sbjct: 180 QATEIGKAVNCLRKHGSKRIRHLARVLIMEWKEMVDLWVQATAAVQGAEVTPDSKNKSAA 239

Query: 233 ------DEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRK 286
                  EEEGLPSPPLDE AFFT     +ELSQFFDGMDD GNPRNSG+F+KNR + RK
Sbjct: 240 VKEEDDYEEEGLPSPPLDEAAFFTTQPTSMELSQFFDGMDDDGNPRNSGDFVKNRNNVRK 299

Query: 287 PSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSS-TNSGPGRPLK 345
            S  NQN  +  QQT  E NVL+K+N + QMK Q  VV+PN   NKPSS TNSG  R  K
Sbjct: 300 TSNGNQNPTRCNQQTTREVNVLSKENKT-QMKEQ--VVKPN---NKPSSNTNSGLLRAQK 353

Query: 346 QNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLA 405
            +  QK DN  K Q+K +K  I   P  +Q +  K SDE AVQVKLEATKRKLQESYQ A
Sbjct: 354 LSTEQK-DNHEKFQRKLEKPTI---PKRNQQDNFKCSDEVAVQVKLEATKRKLQESYQQA 409

Query: 406 ENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           ENAKKQRTIQVMELHDLPKQG+G+RNP L+ G +NR+WANGRR
Sbjct: 410 ENAKKQRTIQVMELHDLPKQGIGHRNPHLKSGGFNRNWANGRR 452

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571901|ref|XP_003554109.1| PREDICTED: uncharacterized protein LOC100799367 [Glycine max]

 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 284/464 (61%), Positives = 350/464 (75%), Gaps = 24/464 (5%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WR YF SAN DIF+II+HA++VAA DCPKEF++RRD IAE+LF+C+LTRC G
Sbjct: 1   MKSWSLDEWRKYFGSANSDIFEIIEHAIIVAASDCPKEFRVRRDGIAERLFSCRLTRCVG 60

Query: 63  CDRVELAVPSGNE--------FDDDEEDCKRDGCEFE-AGGSKESKVNS--CRDDHVSNQ 111
           CDRVELAV + ++         D+D+   +RDG EFE AG SKESKVN    RD ++ + 
Sbjct: 61  CDRVELAVGADSKEKHDGDGDDDNDKSGYERDGVEFEGAGASKESKVNGDGGRDVNLGD- 119

Query: 112 IVSNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTV 171
             SN+S G+ AEAL+DE+EEES+ V E+LRI+++L N  DES++VLF+SLRRLQLM LTV
Sbjct: 120 --SNYSFGE-AEALSDEMEEESRYVAEILRIRDVLLNPEDESEAVLFDSLRRLQLMELTV 176

Query: 172 DTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIA-----EGTPDS 226
           D LKATEIGKAVN LRKHGSK IR L+RTLI+GWK++VDEWV AT   A     EGTPDS
Sbjct: 177 DCLKATEIGKAVNPLRKHGSKDIRQLSRTLIDGWKEMVDEWVKATTTTAITGSEEGTPDS 236

Query: 227 VNPSVV--DEEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESG 284
           VNPSVV  DEEEGLPSPPLDE AFF   +  +ELSQFFDGMDD GNPR +G F KNRE+G
Sbjct: 237 VNPSVVDDDEEEGLPSPPLDEGAFFVTQAGSMELSQFFDGMDDDGNPRPTGPFSKNRENG 296

Query: 285 RKPSVENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPL 344
           RKP  ++  + KRK Q  ++  ++ +D  S Q  ++   V P +P NKP + +SGPGRP 
Sbjct: 297 RKPVFDSHVVEKRKSQASHDTAIIDRDVKSQQQAKKNEAVVPERP-NKPVTADSGPGRPP 355

Query: 345 KQNMGQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQL 404
           K NM +K + E K+QQK +  +I ++P   Q +K K SD+ AVQVKLEATKRKLQESYQ 
Sbjct: 356 KSNMQRKSNMEPKMQQKMENNSITRRPPTGQLDKSKRSDDSAVQVKLEATKRKLQESYQQ 415

Query: 405 AENAKKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           AENAK+QRTIQVME++DLPKQGL +RN   +PG +NRHWANGRR
Sbjct: 416 AENAKRQRTIQVMEINDLPKQGL-HRNTHFKPGYHNRHWANGRR 458

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504664|ref|XP_003521115.1| PREDICTED: uncharacterized protein LOC100817835 [Glycine max]

 Score =  525 bits (1351), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 284/460 (61%), Positives = 346/460 (75%), Gaps = 22/460 (4%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WRNYF SAN DIF+II+HA++VAA DCPKEF++RRD IAE+LF+C+LTRC G
Sbjct: 1   MKSWSLDEWRNYFGSANSDIFEIIEHAIIVAASDCPKEFRVRRDWIAERLFSCRLTRCVG 60

Query: 63  CDRVELAVPS--------GNEFDDDEEDCKRDGCEFE-AGGSKESKVNSCRDDHVSNQIV 113
           CDRVELAV +        G++ D+D+   +RDG EFE AG SKESKVN       +N   
Sbjct: 61  CDRVELAVGADSKKEKHDGDDGDNDKSGFERDGVEFEGAGASKESKVNGD-----ANLGD 115

Query: 114 SNFSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDT 173
           SN+S G+ AEAL+DE+EEESQ V E+LRIK++L N  DES++V+FESLRRLQLM LTVD 
Sbjct: 116 SNYSFGE-AEALSDEMEEESQYVAEILRIKDVLLNPEDESEAVIFESLRRLQLMELTVDC 174

Query: 174 LKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGT--PDSVNPSV 231
           LKATEIGKAVN LRKHGSK IR LARTLI GWK++VDEWV AT   A     PDSVNPSV
Sbjct: 175 LKATEIGKAVNPLRKHGSKDIRQLARTLINGWKEMVDEWVKATTTTAITEGTPDSVNPSV 234

Query: 232 VD--EEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSV 289
           VD  EEEGLPSPPLDE AFF   +  +ELSQFFDGMDD GNPR +G F KN E+GRKP+ 
Sbjct: 235 VDDDEEEGLPSPPLDEGAFFVTQAGSMELSQFFDGMDDDGNPRPTGPFSKNHENGRKPAF 294

Query: 290 ENQNIAKRKQQTPNEPNVLAKDNNSLQM-KRQEAVVRPNKPSNKPSSTNSGPGRPLKQNM 348
           ++  +  RK Q  ++  V+ +D  S Q  K  +A V P +P NKP + +SGPGRP K N+
Sbjct: 295 DSHVLEMRKLQPSHDTVVINRDVKSQQQAKENKAAVMPVRP-NKPVTADSGPGRPPKSNV 353

Query: 349 GQKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENA 408
            +K + E K+QQK +  +I ++P  +Q +K K SD+DAVQVKLEATKRKLQESYQ AE A
Sbjct: 354 QRKSNMEPKMQQKMENNSITRRPPTAQLDKSKRSDDDAVQVKLEATKRKLQESYQQAEKA 413

Query: 409 KKQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           K+QRTIQVME++DLPKQGL +RN   +PG ++RHWANGRR
Sbjct: 414 KRQRTIQVMEINDLPKQGL-HRNTHFKPGYHSRHWANGRR 452

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357509279|ref|XP_003624928.1| hypothetical protein MTR_7g089140 [Medicago truncatula] gi|355499943|gb|AES81146.1| hypothetical protein MTR_7g089140 [Medicago truncatula]

 Score =  507 bits (1305), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 278/459 (60%), Positives = 330/459 (71%), Gaps = 28/459 (6%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WR+YFRS+N DIFDIIDHA++VAA DCPKEFK RRD IAE+LF+  L RC G
Sbjct: 4   MKSESLDQWRSYFRSSNSDIFDIIDHAIVVAASDCPKEFKSRRDGIAERLFSVMLNRCKG 63

Query: 63  CDRVELAVPSGNEFDDDEED--CKRDGCEFEAGGSKESKVNSCRDDH--VSNQIVSNFSS 118
           C++VEL+VP     DDD  D  CKR       G SKESKV+  R+++  +    +SN+S 
Sbjct: 64  CEKVELSVP-----DDDNGDELCKRSS--VREGASKESKVDCSREENGVMDANPISNYSF 116

Query: 119 GDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATE 178
           G+ AEALTDE+EE+SQ+V EV RIKEIL+N  DESDSVLFESLRRLQLM L VD LK+TE
Sbjct: 117 GE-AEALTDELEEQSQLVAEVTRIKEILNNHEDESDSVLFESLRRLQLMQLCVDLLKSTE 175

Query: 179 IGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATK-----AIAEGTPDSVNPSVVD 233
           IGKAVN LRKHGSK IR LARTLI+GWK+LV+ WV AT      A  EGTPDS NPSVV+
Sbjct: 176 IGKAVNHLRKHGSKDIRQLARTLIDGWKELVNAWVKATTTTPVAASEEGTPDSRNPSVVE 235

Query: 234 EEE----GLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSV 289
            EE    GLPSPPLDE AFF  P+  IELSQFFDGMDD GN R S  F KNR++GRKP++
Sbjct: 236 NEEEEEGGLPSPPLDEGAFFVAPTGTIELSQFFDGMDDDGNIRKSAPFNKNRDNGRKPAL 295

Query: 290 ENQNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMG 349
             Q   KR     NE  V AKDN S  MK+ EA  RP    NKP + ++G  RPL  N+ 
Sbjct: 296 GTQTKDKRNFPASNETAVTAKDNKSQHMKKNEAAARP----NKPMAADTGRARPLNSNIQ 351

Query: 350 QKVDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAK 409
           +K + E K+  K + + + K+PLN+Q +K K SD+ A   KLEATKR+LQESYQ AENAK
Sbjct: 352 RKANVEPKMPPKIENSTVPKRPLNAQQDKSKCSDDLA---KLEATKRRLQESYQQAENAK 408

Query: 410 KQRTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           +QRTIQVME++DLPKQG   RN   +PGN+NR W NGRR
Sbjct: 409 RQRTIQVMEINDLPKQGSVQRNTHFKPGNHNRQWGNGRR 447

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357509283|ref|XP_003624930.1| hypothetical protein MTR_7g089140 [Medicago truncatula] gi|355499945|gb|AES81148.1| hypothetical protein MTR_7g089140 [Medicago truncatula]

 Score =  506 bits (1304), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 276/457 (60%), Positives = 330/457 (72%), Gaps = 24/457 (5%)

Query: 3   MKSGSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRCSG 62
           MKS SLD WR+YFRS+N DIFDIIDHA++VAA DCPKEFK RRD IAE+LF+  L RC G
Sbjct: 1   MKSESLDQWRSYFRSSNSDIFDIIDHAIVVAASDCPKEFKSRRDGIAERLFSVMLNRCKG 60

Query: 63  CDRVELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDH--VSNQIVSNFSSGD 120
           C++VEL+VP     D+ +E CKR       G SKESKV+  R+++  +    +SN+S G+
Sbjct: 61  CEKVELSVPDD---DNGDELCKRSS--VREGASKESKVDCSREENGVMDANPISNYSFGE 115

Query: 121 IAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIG 180
            AEALTDE+EE+SQ+V EV RIKEIL+N  DESDSVLFESLRRLQLM L VD LK+TEIG
Sbjct: 116 -AEALTDELEEQSQLVAEVTRIKEILNNHEDESDSVLFESLRRLQLMQLCVDLLKSTEIG 174

Query: 181 KAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATK-----AIAEGTPDSVNPSVVDEE 235
           KAVN LRKHGSK IR LARTLI+GWK+LV+ WV AT      A  EGTPDS NPSVV+ E
Sbjct: 175 KAVNHLRKHGSKDIRQLARTLIDGWKELVNAWVKATTTTPVAASEEGTPDSRNPSVVENE 234

Query: 236 E----GLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVEN 291
           E    GLPSPPLDE AFF  P+  IELSQFFDGMDD GN R S  F KNR++GRKP++  
Sbjct: 235 EEEEGGLPSPPLDEGAFFVAPTGTIELSQFFDGMDDDGNIRKSAPFNKNRDNGRKPALGT 294

Query: 292 QNIAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRPNKPSNKPSSTNSGPGRPLKQNMGQK 351
           Q   KR     NE  V AKDN S  MK+ EA  RP    NKP + ++G  RPL  N+ +K
Sbjct: 295 QTKDKRNFPASNETAVTAKDNKSQHMKKNEAAARP----NKPMAADTGRARPLNSNIQRK 350

Query: 352 VDNESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQ 411
            + E K+  K + + + K+PLN+Q +K K SD+ A   KLEATKR+LQESYQ AENAK+Q
Sbjct: 351 ANVEPKMPPKIENSTVPKRPLNAQQDKSKCSDDLA---KLEATKRRLQESYQQAENAKRQ 407

Query: 412 RTIQVMELHDLPKQGLGNRNPQLRPGNYNRHWANGRR 448
           RTIQVME++DLPKQG   RN   +PGN+NR W NGRR
Sbjct: 408 RTIQVMEINDLPKQGSVQRNTHFKPGNHNRQWGNGRR 444

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	448
TAIR|locus:2156814	436	AT5G05140 [Arabidopsis thalian	0.950	0.977	0.519	5.6e-100
TAIR|locus:2178173	353	AT5G09850 [Arabidopsis thalian	0.633	0.804	0.283	8.7e-34
RGD|1311369	348	Tcea3 "transcription elongatio	0.337	0.433	0.301	1.5e-08
MGI|MGI:1196908	347	Tcea3 "transcription elongatio	0.339	0.438	0.316	1.5e-07
UNIPROTKB|O75764	348	TCEA3 "Transcription elongatio	0.343	0.442	0.306	2e-07
UNIPROTKB|Q5DR83	154	TCEA3 "Rhabdomyosarcoma antige	0.160	0.467	0.394	4.2e-07
UNIPROTKB|F1N0P7	348	TCEA3 "Transcription elongatio	0.348	0.448	0.279	5.7e-07
UNIPROTKB|Q2KI09	349	TCEA3 "Transcription elongatio	0.348	0.446	0.279	5.7e-07
UNIPROTKB|E2R638	154	TCEA3 "Uncharacterized protein	0.160	0.467	0.407	6.9e-07
UNIPROTKB|I3LP05	124	TCEA3 "Uncharacterized protein	0.093	0.338	0.488	7.9e-07

TAIR|locus:2156814 AT5G05140 [Arabidopsis thaliana (taxid:3702)]

 Score = 992 (354.3 bits), Expect = 5.6e-100, P = 5.6e-100
 Identities = 237/456 (51%), Positives = 286/456 (62%)

Query:     3 MK-SGSLDNWRNYFRS-ANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFTCKLTRC 60
             MK SGSLD+WR YFR   + DIF IIDHA+MVAA DCP +FK RRD+IAE LF+C++ RC
Sbjct:     1 MKASGSLDSWREYFRRRGDSDIFGIIDHAIMVAATDCPNKFKSRRDKIAELLFSCRVNRC 60

Query:    61 SGCDRVELAVPSGNEFDDDEEDCKRDGC----EFE-AGGSKESKVNSCRDDHVSNQIVSN 115
              GCD +EL+VP  +E +         G     ++E AGGSKESK NS R D+  NQIVSN
Sbjct:    61 VGCDHLELSVPGDDEANRGTTGNGGGGTAVDEDYEVAGGSKESKANSSRGDN--NQIVSN 118

Query:   116 FSSGDIAEALTDEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLK 175
             ++  D AEAL+DEIEE S V  EV RIKEIL N  DE +SVL +SLR L+LM+L VD LK
Sbjct:   119 YTF-DEAEALSDEIEEFSVVSKEVARIKEILLNKEDEPNSVLLDSLRHLKLMSLNVDILK 177

Query:   176 ATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVNATKAI--AEGTPDSVNPSVVD 233
             +TEIGKAVNGLRKH S +IR LA+TLI  WK+LVD+WVN TK I  AEGTP+S NPSV+D
Sbjct:   178 STEIGKAVNGLRKHSSDKIRQLAKTLIAEWKELVDQWVNTTKEITGAEGTPESANPSVLD 237

Query:   234 EEEGLPSPPLDELAFFTGPSAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQN 293
             EEE  PS P D +  FT    G E+S FFD +D  GNPRNS E   +RE  R+P    QN
Sbjct:   238 EEEAFPSLPYD-VDIFTPEPNGFEISHFFDSLDFDGNPRNSEEHNTSREHERRP----QN 292

Query:   294 IAKRKQQTPNEPNVLAKDNNSLQMKRQEAVVRXXXXXXXXXXXXXXXXRPLKQNMGQKVD 353
             IAKRK   P    +  +D     +K   A                   R   + +     
Sbjct:   293 IAKRK---PEGTQMRIQDAPFRSIKPSSAT---DFDGTRRPVKQSTEQRMKNETVSVHKS 346

Query:   354 NESKLQQKSDKAAINKKPLNSQHNKLKSSDEDAVQVKLEATKRKLQESYQLAENAKKQRT 413
              +  +Q+K       +K    Q  KLK  D DA   K E  KRKLQESYQ  ENAKKQRT
Sbjct:   347 EKPMIQRKPVVTEQKRKAPGPQQEKLKGLDADA---KFEFAKRKLQESYQHHENAKKQRT 403

Query:   414 IQVMELHDLPKQGLGNRNPQL-RPGNYNRHWANGRR 448
             IQV+E+  +PKQG   + PQL RPG  NR+WANGR+
Sbjct:   404 IQVLEM--IPKQGSAQK-PQLKRPGMSNRNWANGRK 436

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

GO:0016021 "integral to membrane" evidence=IEA

GO:0009611 "response to wounding" evidence=RCA

GO:0009620 "response to fungus" evidence=RCA

GO:0009695 "jasmonic acid biosynthetic process" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2178173 AT5G09850 [Arabidopsis thaliana (taxid:3702)]

 Score = 257 (95.5 bits), Expect = 8.7e-34, Sum P(2) = 8.7e-34
 Identities = 86/303 (28%), Positives = 140/303 (46%)

Query:     8 LDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLF-TCKLTRCSGCDRV 66
             LD++R+   +A  D++  ID A++VA+LD  +E K RRD I E+L+ T    +C  CD  
Sbjct:     3 LDDFRSVMDNAGVDVWTFIDTAILVASLDYGQELKRRRDNIVERLYATSMANKCRNCD-- 60

Query:    67 ELAVPSGNEFDDDEEDCKRDGCEFEAGGSKESKVNSCRDDHVSNQIVSNFSSGDIAEALT 126
                   GN  +             E     E  V +  ++ V  + V N    D  +   
Sbjct:    61 --FGGGGNVTEAAIGRVNNGRVHEETEEEDEEGVTAAAEEEVREKSV-NVEDDDDFDPFA 117

Query:   127 DEIEEESQVVGEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGL 186
                ++E +    ++ IKE L +  D S+  L E L+ L+ M +T   L+ T+IG+ VN +
Sbjct:   118 GLFDDEQK---SIVEIKEKLEDP-DLSEESLVELLQNLEDMDITFQALQETDIGRHVNRV 173

Query:   187 RKHGSKQIRHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDEL 246
             RKH S  +R LA+ L++ WK+ VDEWV   +    G  D   PS++ +E+      L   
Sbjct:   174 RKHPSNNVRRLAKQLVKKWKETVDEWVKFNQP---G--DLEPPSLIADEDSPVQKALHNG 228

Query:   247 AFFTGPSAGIE-LSQFFDGMDDFGNPRNSGE-FIKNRESGRKPSVENQNIAKRKQQTPNE 304
             +    P  G   + Q  +G        N  E   K R    +P  E+ + AK  + +P++
Sbjct:   229 SRQQVPDFGYSPVPQ--NGYSSSSKNSNITEPERKPRPVAPQPRRESPSPAKPSRPSPSQ 286

Query:   305 PNV 307
               +
Sbjct:   287 QTI 289

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

GO:0016021 "integral to membrane" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

RGD|1311369 Tcea3 "transcription elongation factor A (SII), 3" [Rattus norvegicus (taxid:10116)]

 Score = 157 (60.3 bits), Expect = 1.5e-08, P = 1.5e-08
 Identities = 53/176 (30%), Positives = 89/176 (50%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    +R +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVARKKTEGAL-DLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query:   195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSA 254
               LA+ LI+ WK L+D     TK   E    +       +E+GL S           P A
Sbjct:    65 VSLAKVLIKNWKRLLDS-PRTTKGEREAREKAKK-----KEKGLGSSGWK-------PEA 111

Query:   255 GIELSQFFDGMDDFGNPRNSGEFIKNRESG----RKPSVENQNIAKRKQQTPNEPN 306
             G+   +  +G    G P+   + + +R S     ++PS+E  N ++ K +TP  P+
Sbjct:   112 GLSPPRKKEG----GEPKTRRDSVDSRSSTTSSPKRPSLERSNSSRSKVETPKTPS 163

GO:0003677 "DNA binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISO

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

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA

MGI|MGI:1196908 Tcea3 "transcription elongation factor A (SII), 3" [Mus musculus (taxid:10090)]

 Score = 148 (57.2 bits), Expect = 1.5e-07, P = 1.5e-07
 Identities = 55/174 (31%), Positives = 85/174 (48%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    SR +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVSRKKTEGAL-DLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query:   195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGP-- 252
               LA+ LI+ WK L+D     TK   E    +       +E+GL        A  + P  
Sbjct:    65 VSLAKVLIKNWKRLLDS-PRTTKGEREEREKA------KKEKGLGCSDWKPEAGLSPPRK 117

Query:   253 SAGIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPN 306
               G E     D +D     R+S        S ++PS+E  N +K K +TP  P+
Sbjct:   118 KGGGEPKTRRDSVDS----RSS-----TTSSPKRPSLERSNSSKSKVETPTTPS 162

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

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

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

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

GO:0006414 "translational elongation" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|O75764 TCEA3 "Transcription elongation factor A protein 3" [Homo sapiens (taxid:9606)]

 Score = 147 (56.8 bits), Expect = 2.0e-07, P = 2.0e-07
 Identities = 53/173 (30%), Positives = 87/173 (50%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    +R  ++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVARKNTEGAL-DLLKKLHSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query:   195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSA 254
               LA+ LI+ WK L+D     +    +G           +E+GL      E + +  P A
Sbjct:    65 VSLAKVLIKNWKRLLD-----SPGPPKGEKGEEREKAKKKEKGL------ECSDWK-PEA 112

Query:   255 GIELSQFFDGMDDFGNPRNSGEFIKNRESG-RKPSVENQNIAKRKQQTPNEPN 306
             G  LS      +D    R+S +   +  S  ++PSVE  N +K K ++P  P+
Sbjct:   113 G--LSPPRKKREDPKTRRDSVDSKSSASSSPKRPSVERSNSSKSKAESPKTPS 163

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q5DR83 TCEA3 "Rhabdomyosarcoma antigen MU-RMS-40.22" [Homo sapiens (taxid:9606)]

 Score = 124 (48.7 bits), Expect = 4.2e-07, P = 4.2e-07
 Identities = 30/76 (39%), Positives = 48/76 (63%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    +R  ++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVARKNTEGAL-DLLKKLHSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query:   195 RHLARTLIEGWKDLVD 210
               LA+ LI+ WK L+D
Sbjct:    65 VSLAKVLIKNWKRLLD 80

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

UNIPROTKB|F1N0P7 TCEA3 "Transcription elongation factor A protein 3" [Bos taurus (taxid:9913)]

 Score = 143 (55.4 bits), Expect = 5.7e-07, P = 5.7e-07
 Identities = 48/172 (27%), Positives = 82/172 (47%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    +R +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVARKKTEGAL-DLLKKLGSWQMSIQLLQTTRIGVAVNGVRKHCSNKEV 64

Query:   195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSA 254
               LA+ LI  WK L+D     + A  +G           +E+GL           + P  
Sbjct:    65 VALAKVLIRNWKQLLD-----SPATPKGEKGEERVKAKKKEKGLDCSDWKPETSLSPPRK 119

Query:   255 GIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPN 306
                + +  D  D   +  ++        S ++PS+E  N +K K +TP  P+
Sbjct:   120 K-RVEEPKDRRDSVDSKSSA------TSSPKRPSMERSNSSKSKAETPRTPS 164

GO:0005634 "nucleus" evidence=IEA

GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q2KI09 TCEA3 "Transcription elongation factor A protein 3" [Bos taurus (taxid:9913)]

 Score = 143 (55.4 bits), Expect = 5.7e-07, P = 5.7e-07
 Identities = 48/172 (27%), Positives = 82/172 (47%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI + L    +R +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIAKKLEKMVARKKTEGAL-DLLKKLGSWQMSIQLLQTTRIGVAVNGVRKHCSNKEV 64

Query:   195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPPLDELAFFTGPSA 254
               LA+ LI  WK L+D     + A  +G           +E+GL           + P  
Sbjct:    65 VALAKVLIRNWKQLLD-----SPATPKGEKGEERVKAKKKEKGLDCSDWKPETSLSPPRK 119

Query:   255 GIELSQFFDGMDDFGNPRNSGEFIKNRESGRKPSVENQNIAKRKQQTPNEPN 306
                + +  D  D   +  ++        S ++PS+E  N +K K +TP  P+
Sbjct:   120 K-RVEEPKDRRDSVDSKSSA------TSSPKRPSMERSNSSKSKAETPRTPS 164

GO:0005634 "nucleus" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

UNIPROTKB|E2R638 TCEA3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 122 (48.0 bits), Expect = 6.9e-07, P = 6.9e-07
 Identities = 31/76 (40%), Positives = 46/76 (60%)

Query:   138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
             E+LRI   L    +R  S+  L   L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct:     6 ELLRIARKLEKMVARKNSEGAL-GLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 64

Query:   195 RHLARTLIEGWKDLVD 210
               LA+ LI+ WK L+D
Sbjct:    65 VSLAKVLIKNWKRLLD 80

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

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|I3LP05 TCEA3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 103 (41.3 bits), Expect = 7.9e-07, Sum P(2) = 7.9e-07
 Identities = 21/43 (48%), Positives = 30/43 (69%)

Query:   169 LTVDTLKATEIGKAVNGLRKHGS-KQIRHLARTLIEGWKDLVD 210
             +++  L+ T IG AVNG+RKH S K++  LA+ LI  WK L+D
Sbjct:     1 MSIQLLQTTRIGVAVNGVRKHCSDKEVVSLAKVLIRNWKRLLD 43

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

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" 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)
Q9FHK9	MD26B_ARATH	No assigned EC number	0.5367	0.9263	0.9518	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	448
cd00183	76	cd00183, TFIIS_I, N-terminal domain (domain I) of	1e-19
pfam08711	51	pfam08711, Med26, TFIIS helical bundle-like domain	9e-16
smart00509	75	smart00509, TFS2N, Domain in the N-terminus of tra	2e-14
TIGR01385	299	TIGR01385, TFSII, transcription elongation factor	4e-08

>gnl|CDD|238107 cd00183, TFIIS_I, N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme

 Score = 82.4 bits (204), Expect = 1e-19
 Identities = 38/74 (51%), Positives = 49/74 (66%), Gaps = 1/74 (1%)

Query: 138 EVLRIKEILHNS-RDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRH 196
           EVLR K+ L     +E  S L + LR L+ + LTV+ LK T IGK VN LRKH +++IR 
Sbjct: 3   EVLRAKKKLEKKDSNEEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRK 62

Query: 197 LARTLIEGWKDLVD 210
           LA+ LI+ WK LVD
Sbjct: 63  LAKALIKSWKKLVD 76

Length = 76

>gnl|CDD|204037 pfam08711, Med26, TFIIS helical bundle-like domain

 Score = 70.6 bits (174), Expect = 9e-16
 Identities = 24/51 (47%), Positives = 37/51 (72%)

Query: 159 ESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLV 209
           E L+ L+ + +T + L+ T IGKAVN LRKH +++++ LA+ LI+ WK LV
Sbjct: 1   ELLKELKKLPITEELLRETGIGKAVNKLRKHENEEVKKLAKKLIKKWKRLV 51

Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species {1-2]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Mediator exists in two major forms in human cells: a smaller form that interacts strongly with pol II and activates transcription, and a large form that does not interact strongly with pol II and does not directly activate transcription. Notably, the 'small' and 'large' Mediator complexes differ in their subunit composition: the Med26 subunit preferentially associates with the small, active complex, whereas cdk8, cyclin C, Med12 and Med13 associate with the large Mediator complex. This family includesthe C terminal region of a number of eukaryotic hypothetical proteins which are homologous to the Saccharomyces cerevisiae protein IWS1. IWS1 is known to be an Pol II transcription elongation factor and interacts with Spt6 and Spt5. Length = 51

>gnl|CDD|197766 smart00509, TFS2N, Domain in the N-terminus of transcription elongation factor S-II (and elsewhere)

 Score = 67.7 bits (166), Expect = 2e-14
 Identities = 28/63 (44%), Positives = 42/63 (66%)

Query: 149 SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDL 208
           +  +  S   + L++L+ + +TVD L+ T IGK VNGLRKH +++IR LA+ LI+ WK L
Sbjct: 13  NNGKEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKL 72

Query: 209 VDE 211
           V  
Sbjct: 73  VYS 75

Length = 75

>gnl|CDD|233390 TIGR01385, TFSII, transcription elongation factor S-II

 Score = 54.1 bits (130), Expect = 4e-08
 Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 1/75 (1%)

Query: 138 EVLRIKEILH-NSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRH 196
           EV    + L  N   ++     + L +L+    T + L+ T++G  VN LRKH ++ I  
Sbjct: 3   EVASHAKALDKNKSSKNVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISK 62

Query: 197 LARTLIEGWKDLVDE 211
           LA+ +I+ WK +VD+
Sbjct: 63  LAKKIIKSWKKVVDK 77

This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end. Length = 299

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	448
cd00183	76	TFIIS_I N-terminal domain (domain I) of transcript	99.68
smart00509	75	TFS2N Domain in the N-terminus of transcription el	99.61
TIGR01385	299	TFSII transcription elongation factor S-II. This m	99.58
PF08711	53	Med26: TFIIS helical bundle-like domain; InterPro:	99.4
KOG1105	296	consensus Transcription elongation factor TFIIS/Co	99.25
KOG2821	433	consensus RNA polymerase II transcription elongati	97.39
KOG1793	417	consensus Uncharacterized conserved protein [Funct	94.88
PF11467	106	LEDGF: Lens epithelium-derived growth factor (LEDG	94.01
COG5139	397	Uncharacterized conserved protein [Function unknow	90.36
PLN02976	1713	amine oxidase	85.46
cd08815	77	Death_TNFRSF25_DR3 Death domain of Tumor Necrosis	80.59

>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme

Probab=99.68  E-value=4.9e-17  Score=132.44  Aligned_cols=74  Identities=51%  Similarity=0.749  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhhcCC-CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHH
Q 013167          137 GEVLRIKEILHNSRD-ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       137 eEV~rIK~~Le~~~d-~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      +||.+++..|+.... .+.+.++++|+.|+.++||+++|++|+||++||+||||.+++|+.+|+.||++||++|+
T Consensus         2 ~ev~r~~~~l~~~~~~~~~~~~~~~L~~L~~~~it~~~L~~T~iG~~V~~Lrkh~~~~i~~~A~~Lv~~Wk~~v~   76 (76)
T cd00183           2 EEVLRAKKKLEKKDSNEEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD   76 (76)
T ss_pred             hHHHHHHHHhhccccCCCHHHHHHHHHHHhcCCCCHHHHHHCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcC
Confidence            689999999998753 57889999999999999999999999999999999999999999999999999999873

>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere)

Probab=99.61  E-value=8.1e-16  Score=125.40  Aligned_cols=70  Identities=43%  Similarity=0.681  Sum_probs=61.3

Q ss_pred             HHHHHHhhcCC--CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHH
Q 013167          141 RIKEILHNSRD--ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       141 rIK~~Le~~~d--~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      ++.+.|+++..  ..++.++++|++|+.++||+++|++|+||++||+||||++++|+.+|+.||++||++|+
T Consensus         3 ~~~k~~~k~~~~~~~~~~~l~~L~~L~~~~~t~~~L~~T~iG~~v~~Lrkh~~~~I~~~A~~Li~~WK~~v~   74 (75)
T smart00509        3 RAAKKLDKVANNGKEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY   74 (75)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCHHHHHHCcHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhc
Confidence            34455555432  34678999999999999999999999999999999999999999999999999999985

>TIGR01385 TFSII transcription elongation factor S-II

Probab=99.58  E-value=2.9e-15  Score=150.10  Aligned_cols=76  Identities=30%  Similarity=0.494  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHhhcCC-CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHHHH
Q 013167          137 GEVLRIKEILHNSRD-ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEW  212 (448)
Q Consensus       137 eEV~rIK~~Le~~~d-~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~e~  212 (448)
                      +||.++.+.|+++.. .+++.+|++|++|+.++||+++|++|+||++||+||||++++|+.||+.||++||++|..+
T Consensus         2 ~ei~~~~k~L~k~~~~~~~~~~l~~L~~L~~~~~t~~lL~~T~IG~~Vn~lrkh~~~~I~~lAk~li~~WK~~v~~~   78 (299)
T TIGR01385         2 AEVASHAKALDKNKSSKNVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKKVVDKN   78 (299)
T ss_pred             hHHHHHHHHhhhhccCCCHHHHHHHHHHHhcCCCcHHHHhhCchhHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhhh
Confidence            589999999998764 5678999999999999999999999999999999999999999999999999999999876

This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.

>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription

Probab=99.40  E-value=2e-13  Score=103.60  Aligned_cols=52  Identities=54%  Similarity=0.827  Sum_probs=47.4

Q ss_pred             HHHHHHhcCcCCHHHHhccCccccccccccC-CCHHHHHHHHHHHHHHHHHHH
Q 013167          159 ESLRRLQLMALTVDTLKATEIGKAVNGLRKH-GSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       159 elLr~L~~l~iT~dlLksT~IGkaVnkLRKH-~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      ++|+.|+.+|||.++|++|+||++|+.|+|| .+++|+.+|+.||++||.+|+
T Consensus         1 ~iL~~L~~l~it~~~L~~T~IGk~V~~l~k~~~~~~i~~~A~~Li~~Wk~~v~   53 (53)
T PF08711_consen    1 EILKVLEKLPITVELLKSTGIGKAVNKLRKHSENPEIRKLAKELIKKWKRIVD   53 (53)
T ss_dssp             HHHHHHHCSS-SHHHHHHHSHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHH-
T ss_pred             CHHHHhhcCCCCHHHHHhCChhHHHHHHHcCCCCHHHHHHHHHHHHHHhHhcC
Confidence            5899999999999999999999999999999 888999999999999999985

The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.

>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]

Probab=99.25  E-value=1.3e-11  Score=123.51  Aligned_cols=77  Identities=34%  Similarity=0.583  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHhhcCC-CChHHHHHHHHHHhcCcCCHHHHhccCcccccc-ccccCCCHHHHHHHHHHHHHHHHHHHHH
Q 013167          136 VGEVLRIKEILHNSRD-ESDSVLFESLRRLQLMALTVDTLKATEIGKAVN-GLRKHGSKQIRHLARTLIEGWKDLVDEW  212 (448)
Q Consensus       136 ~eEV~rIK~~Le~~~d-~se~~llelLr~L~~l~iT~dlLksT~IGkaVn-kLRKH~s~eI~~LAk~LIkkWK~lV~e~  212 (448)
                      .+|++++.+.|+++.. .+.+.++++|.+|+.+|||+++|++|+||+.|| .|++|.+++|+++|+.||+.||++|+..
T Consensus         3 ~e~~~r~ak~l~~~~~~~n~~~~ld~l~~L~~~pvt~ell~~Tr~g~~vn~~~Kk~~n~ev~~~ak~Lik~Wkk~~~~~   81 (296)
T KOG1105|consen    3 EEEALRAAKALEKDKQSKNVEAALDLLKRLKKIPVTLELLQETRTGMGVNEVLKKHKNEEVRSLAKKLIKSWKKLVDKS   81 (296)
T ss_pred             cHHHHHHHHHHHhhcccccHHHHHHHHHHHHhcccHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcc
Confidence            4799999999999876 466899999999999999999999999999999 6678889999999999999999999864

>KOG2821 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin A [Transcription]

Probab=97.39  E-value=9.6e-05  Score=77.96  Aligned_cols=70  Identities=31%  Similarity=0.451  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHhhcCCCChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHH
Q 013167          137 GEVLRIKEILHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       137 eEV~rIK~~Le~~~d~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      .-|.++...|++..  ....++..|..|..+|++++.|.+|.||++|+.||||.  .|..+|.+|+..||++|.
T Consensus         9 ~~Vr~lQ~~l~~~~--dpkR~lk~I~~ls~lP~~~k~l~Et~~~k~l~~L~k~~--~~g~~~~Dl~~~WK~~v~   78 (433)
T KOG2821|consen    9 GAVRKLQARLENRI--DPKRLLKRIQKLSNLPHLFKHLLETGKGKTLNSLRKIS--HVGKLAFDLVALWKDLVL   78 (433)
T ss_pred             HHHHHHHHHHHhCc--cHHHHHHHHHHhccchHHHHHHHHhhhhHHHHHHHHhh--cccccccchHHHHHHhcc
Confidence            56788888888763  46899999999999999999999999999999999997  799999999999999995

>KOG1793 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.88  E-value=0.051  Score=57.34  Aligned_cols=52  Identities=27%  Similarity=0.376  Sum_probs=46.5

Q ss_pred             HHHHHHHhcCcCCH-HHHhccCccccccccccCCCH--HHHHHHHHHHHHHHHHH
Q 013167          158 FESLRRLQLMALTV-DTLKATEIGKAVNGLRKHGSK--QIRHLARTLIEGWKDLV  209 (448)
Q Consensus       158 lelLr~L~~l~iT~-dlLksT~IGkaVnkLRKH~s~--eI~~LAk~LIkkWK~lV  209 (448)
                      ..+|.-|..+||-. +.|+.++||++|==|-||+.+  +++.||..||..|-.-+
T Consensus       236 ~~ll~iL~dlpi~~~E~Lk~SGlGkvVmflsks~ket~~nkrlA~kLI~eWsRpI  290 (417)
T KOG1793|consen  236 KSLLDILNDLPIDKREHLKESGLGKVVMFLSKSPKETKENKRLANKLINEWSRPI  290 (417)
T ss_pred             HHHHHHHhcCCcchHHHHHhcCCCeEEEEEecCCccchHHHHHHHHHHHHhhccc
Confidence            45788888899998 999999999999999999754  99999999999998766

>PF11467 LEDGF: Lens epithelium-derived growth factor (LEDGF) ; InterPro: IPR021567 LEDGF is a chromatin-associated protein that protects cells from stress-induced apoptosis

Probab=94.01  E-value=0.14  Score=45.01  Aligned_cols=59  Identities=24%  Similarity=0.272  Sum_probs=47.7

Q ss_pred             CChHHHHHHHHHHhcCcCCHHHHh-ccCccccccccccCC-CHHHHHHHHHHHHHHHHHHH
Q 013167          152 ESDSVLFESLRRLQLMALTVDTLK-ATEIGKAVNGLRKHG-SKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       152 ~se~~llelLr~L~~l~iT~dlLk-sT~IGkaVnkLRKH~-s~eI~~LAk~LIkkWK~lV~  210 (448)
                      .+...+|++|..|..|+||..+|+ .+.+--++.+||+.. |..|++.|..|..+.|.++.
T Consensus        20 ~Dv~kcL~~LdeL~~l~vT~~mL~kn~e~V~TlkklRrY~gn~~Ir~KA~~lYnkfK~~f~   80 (106)
T PF11467_consen   20 PDVKKCLKALDELKSLQVTSLMLQKNPECVETLKKLRRYKGNQQIRKKATELYNKFKSLFL   80 (106)
T ss_dssp             E-HHHHHHHHHHHHTS---HHHHTTTHHHHHHHHHHTT-TT-HHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHhCHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhC
Confidence            467899999999999999999886 566888999999984 67999999999999999985

It is the binding partner of HIV-1 integrase in human cells. The integrase binding domain (IBD) of LEDGF is a compact right-handed bundle composed of five alpha-helices. The residues essential for the interaction with the integrase are present in the inter-helical loop regions of the bundle structure. ; PDB: 3F9K_K 3HPG_G 3U88_C 3HPH_H 2B4J_D 1Z9E_A.

>COG5139 Uncharacterized conserved protein [Function unknown]

Probab=90.36  E-value=0.33  Score=49.94  Aligned_cols=51  Identities=22%  Similarity=0.433  Sum_probs=42.4

Q ss_pred             HHHHHHhcCcCCHHHHhccCccccccccc--cCCCHHHHHHHHHHHHHHHHHH
Q 013167          159 ESLRRLQLMALTVDTLKATEIGKAVNGLR--KHGSKQIRHLARTLIEGWKDLV  209 (448)
Q Consensus       159 elLr~L~~l~iT~dlLksT~IGkaVnkLR--KH~s~eI~~LAk~LIkkWK~lV  209 (448)
                      .+|-.|..|||-.+.|++++||+.|==..  |...++|+.+|+.||..|-.-|
T Consensus       234 sL~dvL~~lpI~tEHL~eSgvGrIV~FYtiskk~e~~v~r~A~~LV~eWtrpI  286 (397)
T COG5139         234 SLLDVLKTLPIHTEHLVESGVGRIVYFYTISKKEEKEVRRSAKALVQEWTRPI  286 (397)
T ss_pred             HHHHHHhhCCchHHHhhhcCCceEEEEEecCCcccHHHHHHHHHHHHHhhccc
Confidence            36667788999999999999999986554  4456799999999999998655

>PLN02976 amine oxidase

Probab=85.46  E-value=1.5  Score=53.51  Aligned_cols=58  Identities=26%  Similarity=0.423  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHhcCcCCHHHHhccCcccccc-ccccCCCHHHHHHHHHHHHHHHHHHHHH
Q 013167          155 SVLFESLRRLQLMALTVDTLKATEIGKAVN-GLRKHGSKQIRHLARTLIEGWKDLVDEW  212 (448)
Q Consensus       155 ~~llelLr~L~~l~iT~dlLksT~IGkaVn-kLRKH~s~eI~~LAk~LIkkWK~lV~e~  212 (448)
                      .-+..+|+-|-.++..+..|+.++||++|. ++.-|.+.+|+.||+.|+..|-.++..+
T Consensus      1301 ~l~~~~~~ll~~~~~d~~a~r~sg~~~~~k~~~~~h~~~~~r~~a~~~~~~w~~~~~~~ 1359 (1713)
T PLN02976       1301 QLLRHCVRLLVLVSTDLLAVRLSGIGKTVKEKVCVHTSRDIRAIASQLVSVWLEVFRRE 1359 (1713)
T ss_pred             HHHHHHHHHHhhcchhHHHHHhccchHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHh
Confidence            344557777777888888899999999994 6689999999999999999999998643

>cd08815 Death_TNFRSF25_DR3 Death domain of Tumor Necrosis Factor Receptor superfamily 25

Probab=80.59  E-value=2.3  Score=35.80  Aligned_cols=40  Identities=18%  Similarity=0.263  Sum_probs=31.9

Q ss_pred             CChhhHHHHHhhcCCchHHHHHHHHHHHhcCCchHHHHhhhhHHHHHhh
Q 013167            6 GSLDNWRNYFRSANGDIFDIIDHAVMVAALDCPKEFKLRRDRIAEKLFT   54 (448)
Q Consensus         6 ~~ld~WR~~fr~ag~di~~~Id~AI~VAA~D~P~elr~RRD~IaErLf~   54 (448)
                      ..+++|++|||..|-.     |+.|..|=.|+    +..||.+-++|-.
T Consensus         9 VP~~~wk~F~R~LGLs-----dn~Ie~~E~~~----~~~rda~y~ML~~   48 (77)
T cd08815           9 VPARRWKEFVRTLGLR-----EAEIEAVELEI----GRFRDQQYEMLKR   48 (77)
T ss_pred             CChHHHHHHHHHcCCc-----HhHHHHHHhcc----cchHHHHHHHHHH
Confidence            5689999999999865     77788887766    5567888888764

Death Domain (DD) found in Tumor Necrosis Factor (TNF) receptor superfamily 25 (TNFRSF25), also known as TRAMP (TNF receptor-related apoptosis-mediating protein), LARD, APO-3, WSL-1, or DR3 (Death Receptor-3). TNFRSF25 is primarily expressed in T cells, is activated by binding to its ligand TL1A, and plays an important role in T-cell function. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	448
1wjt_A	103	Solution Structure Of The N-Terminal Domain I Of Mo		2e-06

>pdb|1WJT|A Chain A, Solution Structure Of The N-Terminal Domain I Of Mouse Transcription Elongation Factor S-Ii Protein 3 Length = 103

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/92 (39%), Positives = 54/92 (58%), Gaps = 5/92 (5%)
Query: 138 EVLRIKEILHN--SRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQI 194
           E+LRI + L    SR +++  L + L++L    +++  L+ T IG AVNG+RKH S K++
Sbjct: 13  ELLRIAKKLEKMVSRKKTEGAL-DLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV 71
Query: 195 RHLARTLIEGWKDLVDEWVNATKAIAEGTPDS 226
             LA+ LI+ WK L+D     TK   E  P S
Sbjct: 72  VSLAKVLIKNWKRLLDS-PRTTKGERESGPSS 102

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	448
1wjt_A	103	Transcription elongation factor S-II protein 3; fo	3e-19
1pqv_S	309	STP-alpha, transcription elongation factor S-II, D	1e-11
2xpp_A	145	IWS1, ECU08_0440; transcription, elongation, histo	2e-04

>1wjt_A Transcription elongation factor S-II protein 3; four-helix bundle, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.48.3.1 Length = 103

 Score = 81.6 bits (201), Expect = 3e-19
 Identities = 29/89 (32%), Positives = 45/89 (50%), Gaps = 2/89 (2%)

Query: 138 EVLRIKEILHNSRDESDS-VLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIR 195
           E+LRI + L        +    + L++L    +++  L+ T IG AVNG+RKH S K++ 
Sbjct: 13  ELLRIAKKLEKMVSRKKTEGALDLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEVV 72

Query: 196 HLARTLIEGWKDLVDEWVNATKAIAEGTP 224
            LA+ LI+ WK L+D           G  
Sbjct: 73  SLAKVLIKNWKRLLDSPRTTKGERESGPS 101

>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A Length = 309

 Score = 64.0 bits (154), Expect = 1e-11
 Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 2/106 (1%)

Query: 138 EVLRIKEILHNSRDESDSVLFESLRRLQ-LMALTVDTLKATEIGKAVNGLRKHGSKQIRH 196
           EVL   + L  ++    +VL E L  L      T   L+ T++G  VN  +K  + +I  
Sbjct: 5   EVLVHVKNLEKNKSNDAAVL-EILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISK 63

Query: 197 LARTLIEGWKDLVDEWVNATKAIAEGTPDSVNPSVVDEEEGLPSPP 242
           L + +I  WKD +++   + +A       +   +      G     
Sbjct: 64  LVKKMISSWKDAINKNKRSRQAQQHHQDHAPGNAEDKTTVGESVNG 109

>2xpp_A IWS1, ECU08_0440; transcription, elongation, histone chaperone, RNA polymerase mRNA export; 1.74A {Encephalitozoon cuniculi} PDB: 2xpo_A 2xpn_A 2xpl_A Length = 145

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 146 LHNSRDESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHG--SKQIRHLARTLIE 203
           L +    +  +    L  L+ M +  + L  + +GK V     +   SK++R  A+ L++
Sbjct: 73  LPDKSMPNIKIRKRLLDVLKTMKIHKEHLVTSGVGKIVYFYSINPKESKEVRASAKALVQ 132

Query: 204 GWK 206
            W 
Sbjct: 133 KWT 135

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	448
1wjt_A	103	Transcription elongation factor S-II protein 3; fo	99.74
1pqv_S	309	STP-alpha, transcription elongation factor S-II, D	99.56
2xpp_A	145	IWS1, ECU08_0440; transcription, elongation, histo	97.69
3nfq_A	170	Transcription factor IWS1; SPN1, RNA polymerase II	97.44
2b4j_C	98	PC4 and SFRS1 interacting protein; HIV, integratio	93.34
1z9e_A	127	PC4 and SFRS1 interacting protein 2; heat repeat-l	92.34

>1wjt_A Transcription elongation factor S-II protein 3; four-helix bundle, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.48.3.1

Probab=99.74  E-value=3.1e-19  Score=152.58  Aligned_cols=79  Identities=34%  Similarity=0.551  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHhhcCC-CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccC-CCHHHHHHHHHHHHHHHHHHHHHh
Q 013167          136 VGEVLRIKEILHNSRD-ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKH-GSKQIRHLARTLIEGWKDLVDEWV  213 (448)
Q Consensus       136 ~eEV~rIK~~Le~~~d-~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH-~s~eI~~LAk~LIkkWK~lV~e~~  213 (448)
                      ++||.+|.+.|+++.+ .+.+.++++|++|+.++||+++|++|+||++||+|||| ++++|+.+|+.||++||++|.++.
T Consensus        11 e~ev~~i~k~L~k~~~~~~~~~~l~~L~~L~~~~iT~e~L~~T~IGk~Vn~LrKh~~~~~V~~lAk~Lv~~WK~~v~~~~   90 (103)
T 1wjt_A           11 EEELLRIAKKLEKMVSRKKTEGALDLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEVVSLAKVLIKNWKRLLDSPR   90 (103)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSSHHHHHHHHHTSCCCHHHHHHTCHHHHHHHHHHHCCCSHHHHHHHHHHHHHHHHTCCSC
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhCCCCCHHHHHHcchhHHHHHHHccCCcHHHHHHHHHHHHHHHHHHHHhc
Confidence            4689999999998643 56678999999999999999999999999999999999 778999999999999999998643


Q ss_pred             h
Q 013167          214 N  214 (448)
Q Consensus       214 ~  214 (448)
                      .
T Consensus        91 ~   91 (103)
T 1wjt_A           91 T   91 (103)
T ss_dssp             C
T ss_pred             c
Confidence            3

>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A

Probab=99.56  E-value=4.3e-15  Score=147.69  Aligned_cols=79  Identities=27%  Similarity=0.418  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHHhhcCCCChHHHHHHHHHH-hcCcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 013167          136 VGEVLRIKEILHNSRDESDSVLFESLRRL-QLMALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVDEWVN  214 (448)
Q Consensus       136 ~eEV~rIK~~Le~~~d~se~~llelLr~L-~~l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~e~~~  214 (448)
                      ++||++|++.|++ ...+.+.++++|++| +.++||+++|++|+||++||+||||.+++|+.+|+.||++||++|..+..
T Consensus         3 ~~el~~~~~~L~k-~~~~~~~~l~~L~~L~~~~~it~~~L~~T~IG~~Vn~lrkh~~~~v~~~Ak~Li~~WK~~v~~~~~   81 (309)
T 1pqv_S            3 SKEVLVHVKNLEK-NKSNDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWKDAINKNKR   81 (309)
T ss_pred             HHHHHHHHHHHhc-cCCCHHHHHHHHHHHHhcCCCCHHHHHhCChhHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4799999999998 346788999999999 99999999999999999999999999999999999999999999987754


Q ss_pred             h
Q 013167          215 A  215 (448)
Q Consensus       215 ~  215 (448)
                      .
T Consensus        82 ~   82 (309)
T 1pqv_S           82 S   82 (309)
T ss_pred             C
Confidence            4

>2xpp_A IWS1, ECU08_0440; transcription, elongation, histone chaperone, RNA polymerase mRNA export; 1.74A {Encephalitozoon cuniculi} PDB: 2xpo_A 2xpn_A 2xpl_A

Probab=97.69  E-value=5.2e-05  Score=68.38  Aligned_cols=70  Identities=23%  Similarity=0.285  Sum_probs=56.7

Q ss_pred             HHHHHHhhcCC---CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCCH--HHHHHHHHHHHHHHHHHH
Q 013167          141 RIKEILHNSRD---ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGSK--QIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       141 rIK~~Le~~~d---~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s~--eI~~LAk~LIkkWK~lV~  210 (448)
                      .|+.=|+-.+|   ....---.+|+-|..|||+.+.|+.++||++|..|.||+.+  +++++|+.||.+|...+-
T Consensus        65 ~l~~WL~PLpDgsLP~~~Ir~~lL~~L~~lPI~~e~Lk~SglGkvv~~l~k~~~et~~nk~la~~Li~~WsRpi~  139 (145)
T 2xpp_A           65 EIKGWLEPLPDKSMPNIKIRKRLLDVLKTMKIHKEHLVTSGVGKIVYFYSINPKESKEVRASAKALVQKWTNEVF  139 (145)
T ss_dssp             HHHHHHSCCTTSCCCCHHHHHHHHHHHHTSCCCHHHHHHHCHHHHHHHHHHCTTSCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCcCCCCCCCCHHHHHHHHHHHHHCCCCHHHhhcCCCCcchhhhhcCCccCHHHHHHHHHHHHHHHHHHh
Confidence            34455655555   33334466899999999999999999999999999999764  999999999999997763

>3nfq_A Transcription factor IWS1; SPN1, RNA polymerase II; 1.85A {Saccharomyces cerevisiae} PDB: 3o8z_A 3oak_A

Probab=97.44  E-value=0.00014  Score=67.17  Aligned_cols=68  Identities=22%  Similarity=0.296  Sum_probs=54.3

Q ss_pred             HHHHHhhcCC---CChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCCC--HHHHHHHHHHHHHHHHHH
Q 013167          142 IKEILHNSRD---ESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS--KQIRHLARTLIEGWKDLV  209 (448)
Q Consensus       142 IK~~Le~~~d---~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~s--~eI~~LAk~LIkkWK~lV  209 (448)
                      |+.=|+-.++   ....---.+|+-|..|||+.+.|+.++||++|.-|.||+.  .+++.+|..||.+|...+
T Consensus        81 l~~WLePLpDgSLP~~~Ir~~lL~~L~~lPI~~e~Lk~SglGkvV~~l~k~~~et~~nkrla~~Li~~WsRpI  153 (170)
T 3nfq_A           81 VRIWLEPLPDGSLPSFEIQKSLFAALNDLPVKTEHLKESGLGRVVIFYTKSKRVEAQLARLAEKLIAEWTRPI  153 (170)
T ss_dssp             HHHHHSCCTTSCCCCHHHHHHHHHHHHTSCCCHHHHHHHSHHHHHHHHHHCTTSCHHHHHHHHHHHHHHTCCC
T ss_pred             HHHHhCcCCCCCCCcHHHHHHHHHHHHHCCCCHHHHhhCCCCceeeehhcCCcccHHHHHHHHHHHHHHHHHH
Confidence            4445655555   2333346688889999999999999999999999999975  489999999999996554

>2b4j_C PC4 and SFRS1 interacting protein; HIV, integration, transcription, viral protein, recombinatio; 2.02A {Homo sapiens} SCOP: a.48.4.1 PDB: 3f9k_C 3hpg_G 3u88_C* 3hph_E

Probab=93.34  E-value=0.22  Score=42.26  Aligned_cols=59  Identities=19%  Similarity=0.227  Sum_probs=50.7

Q ss_pred             CChHHHHHHHHHHhcCcCCHHHHh-ccCccccccccccC-CCHHHHHHHHHHHHHHHHHHH
Q 013167          152 ESDSVLFESLRRLQLMALTVDTLK-ATEIGKAVNGLRKH-GSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       152 ~se~~llelLr~L~~l~iT~dlLk-sT~IGkaVnkLRKH-~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      .+...++++|..|..|++|.-+|+ .+.+=-++.+||+. .+..|++.|..|+.+.|.++.
T Consensus        24 ~Dv~kcl~~L~~l~~l~~T~~mL~rnpe~V~t~kklRry~g~q~Ir~kA~~iY~kfK~~f~   84 (98)
T 2b4j_C           24 LDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNMFL   84 (98)
T ss_dssp             CCHHHHHHHHHHHHTCCCCHHHHHTTHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHhcccccHHHHhhChHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHh
Confidence            568899999999999999999665 66788899999877 467999999999999999985

>1z9e_A PC4 and SFRS1 interacting protein 2; heat repeat-like, ledgf, protein binding/transcription complex; NMR {Homo sapiens} SCOP: a.48.4.1

Probab=92.34  E-value=0.26  Score=43.58  Aligned_cols=59  Identities=19%  Similarity=0.227  Sum_probs=52.2

Q ss_pred             CChHHHHHHHHHHhcCcCCHHHHh-ccCccccccccccC-CCHHHHHHHHHHHHHHHHHHH
Q 013167          152 ESDSVLFESLRRLQLMALTVDTLK-ATEIGKAVNGLRKH-GSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       152 ~se~~llelLr~L~~l~iT~dlLk-sT~IGkaVnkLRKH-~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      .+...++++|..|..|++|.-+|+ -+.|--++.+||+. .+..|++.|..|+.+.|.++.
T Consensus        24 ~Dv~kCl~~Leel~~l~vT~~mL~Rnpe~V~TlkklRrY~gnq~Ir~kA~~iY~kFK~lf~   84 (127)
T 1z9e_A           24 LDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNMFL   84 (127)
T ss_dssp             CCHHHHHHHHHHHHHSCCCHHHHGGGHHHHHHHHHHTTCTTCSSHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHccccccHHHHhhChHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence            567899999999999999999665 66788899999877 467999999999999999995

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	448
d1eo0a_	77	a.48.3.1 (A:) Transcription elongation factor TFII	2e-18
d1wjta_	103	a.48.3.1 (A:) Transcription elongation factor S-II	4e-18

>d1eo0a_ a.48.3.1 (A:) Transcription elongation factor TFIIS N-domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 77

class: All alpha proteins
fold: N-cbl like
superfamily: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
family: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
domain: Transcription elongation factor TFIIS N-domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 77.5 bits (191), Expect = 2e-18
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 138 EVLRIKEILHNSRDESDSVLFESLRRLQ-LMALTVDTLKATEIGKAVNGLRKHGSKQIRH 196
           EVL   + L  ++    +VL E L  L      T   L+ T++G  VN  +K  + +I  
Sbjct: 5   EVLVHVKNLEKNKSNDAAVL-EILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISK 63

Query: 197 LARTLIEGWKDLVD 210
           L + +I  WKD ++
Sbjct: 64  LVKKMISSWKDAIN 77

>d1wjta_ a.48.3.1 (A:) Transcription elongation factor S-II protein 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 103

class: All alpha proteins
fold: N-cbl like
superfamily: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
family: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
domain: Transcription elongation factor S-II protein 3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 77.2 bits (190), Expect = 4e-18
 Identities = 29/89 (32%), Positives = 45/89 (50%), Gaps = 2/89 (2%)

Query: 138 EVLRIKEILHNSRDESDS-VLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHGS-KQIR 195
           E+LRI + L        +    + L++L    +++  L+ T IG AVNG+RKH S K++ 
Sbjct: 13  ELLRIAKKLEKMVSRKKTEGALDLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEVV 72

Query: 196 HLARTLIEGWKDLVDEWVNATKAIAEGTP 224
            LA+ LI+ WK L+D           G  
Sbjct: 73  SLAKVLIKNWKRLLDSPRTTKGERESGPS 101

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	448
d1eo0a_	77	Transcription elongation factor TFIIS N-domain {Ba	99.73
d1wjta_	103	Transcription elongation factor S-II protein 3 {Mo	99.71
d2b4jc1	81	PC4 and SFRS1-interacting protein, PSIP1 {Human (H	96.96

>d1eo0a_ a.48.3.1 (A:) Transcription elongation factor TFIIS N-domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: N-cbl like
superfamily: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
family: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
domain: Transcription elongation factor TFIIS N-domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.73  E-value=6.6e-19  Score=141.75  Aligned_cols=73  Identities=29%  Similarity=0.472  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHhhcCCCChHHHHHHHHHHhc-CcCCHHHHhccCccccccccccCCCHHHHHHHHHHHHHHHHHHH
Q 013167          137 GEVLRIKEILHNSRDESDSVLFESLRRLQL-MALTVDTLKATEIGKAVNGLRKHGSKQIRHLARTLIEGWKDLVD  210 (448)
Q Consensus       137 eEV~rIK~~Le~~~d~se~~llelLr~L~~-l~iT~dlLksT~IGkaVnkLRKH~s~eI~~LAk~LIkkWK~lV~  210 (448)
                      +||+++++.|++. ..+++.++++|+.|+. ++||+++|++|+||++||+||||++++|+.+|+.||++||++|+
T Consensus         4 ~ev~~~~k~Lek~-~~~~~~~l~~L~~L~~~~~it~d~L~~T~iG~~Vn~LRkh~~~~v~~lAk~Lv~~WK~~Vd   77 (77)
T d1eo0a_           4 KEVLVHVKNLEKN-KSNDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWKDAIN   77 (77)
T ss_dssp             HHHHHHHHHHHHH-CSSSHHHHHHHHHHTTTCSCSTTHHHHHHHHHHHHHCCSSSCTTHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcc-cCCHHHHHHHHHHHHhcCCCcHHHHHHCCccHHHHHHhcCCcHHHHHHHHHHHHHHHHhcC
Confidence            6899999999985 3567899999999996 99999999999999999999999999999999999999999984

>d1wjta_ a.48.3.1 (A:) Transcription elongation factor S-II protein 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: N-cbl like
superfamily: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
family: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
domain: Transcription elongation factor S-II protein 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.71  E-value=6.9e-19  Score=148.31  Aligned_cols=79  Identities=34%  Similarity=0.547  Sum_probs=70.7

Q ss_pred             hHHHHHHHHHHHHhhcC-CCChHHHHHHHHHHhcCcCCHHHHhccCccccccccccCC-CHHHHHHHHHHHHHHHHHHHH
Q 013167          134 QVVGEVLRIKEILHNSR-DESDSVLFESLRRLQLMALTVDTLKATEIGKAVNGLRKHG-SKQIRHLARTLIEGWKDLVDE  211 (448)
Q Consensus       134 ~v~eEV~rIK~~Le~~~-d~se~~llelLr~L~~l~iT~dlLksT~IGkaVnkLRKH~-s~eI~~LAk~LIkkWK~lV~e  211 (448)
                      .+.+||.+|++.|+++. ..+.+.++++|+.|+.++||+++|++|+||++||+||||. +++|+.+|+.||++||++|..
T Consensus         9 ~~eeei~~i~k~L~~~~~~~~~~~vl~~L~~L~~~~it~e~L~~T~IGk~Vn~LrK~~~~~~v~~lAk~Lv~~WK~~v~~   88 (103)
T d1wjta_           9 GLEEELLRIAKKLEKMVSRKKTEGALDLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEVVSLAKVLIKNWKRLLDS   88 (103)
T ss_dssp             CSHHHHHHHHHHHHHHHHTTCCSSHHHHHHHHHTSCCCHHHHHHTCHHHHHHHHHHHCCCSHHHHHHHHHHHHHHHHTCC
T ss_pred             cHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHcCCCCHHHHHhCCccHhHHHHHccCCCHHHHHHHHHHHHHHHHHHHh
Confidence            34479999999999864 3566789999999999999999999999999999999996 579999999999999999974


Q ss_pred             H
Q 013167          212 W  212 (448)
Q Consensus       212 ~  212 (448)
                      +
T Consensus        89 ~   89 (103)
T d1wjta_          89 P   89 (103)
T ss_dssp             S
T ss_pred             h
Confidence            4

>d2b4jc1 a.48.4.1 (C:346-426) PC4 and SFRS1-interacting protein, PSIP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: N-cbl like
superfamily: HIV integrase-binding domain
family: HIV integrase-binding domain
domain: PC4 and SFRS1-interacting protein, PSIP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.96  E-value=0.00095  Score=52.96  Aligned_cols=73  Identities=21%  Similarity=0.266  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHhhcC---CCChHHHHHHHHHHhcCcCCHHHHh-ccCccccccccccC-CCHHHHHHHHHHHHHHHHH
Q 013167          136 VGEVLRIKEILHNSR---DESDSVLFESLRRLQLMALTVDTLK-ATEIGKAVNGLRKH-GSKQIRHLARTLIEGWKDL  208 (448)
Q Consensus       136 ~eEV~rIK~~Le~~~---d~se~~llelLr~L~~l~iT~dlLk-sT~IGkaVnkLRKH-~s~eI~~LAk~LIkkWK~l  208 (448)
                      ++.+..|...|...-   ..+...++++|.+|..+++|.-+|+ .+.|--++.+||++ .|.+|+..|..|..+||.+
T Consensus         4 E~~l~~L~~~ik~sL~~~~~dv~kcL~~L~~l~~l~vt~~mL~kn~e~V~tikklRry~gn~~Ir~kA~~ly~kfKsl   81 (81)
T d2b4jc1           4 DSRLQRIHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNM   81 (81)
T ss_dssp             HHHHHHHHHHHHHHTCTTSCCHHHHHHHHHHHHTCCCCHHHHHTTHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHcCCCCHHHHHHChHHHHHHHHHHHHhccHHHHHHHHHHHHHhccC
Confidence            344555555554332   2578899999999999999999886 55699999999999 6789999999999999974