Citrus Sinensis ID: 025050

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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-------26
Protein Sequence
MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTFTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYLCPI
Secondary Structure (PSIPRED)
cccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccEEEEEcccEEEEEEcHHHHHHccccHHHHHHHHHHHHcccEEccccEEEEEEEEccHHHHHHHHHHHHHHccccccccccccEEEEcccEEEEEEccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHcccccccccccccEEEEEccccccHHHHHHHcccccccccccHHHHcHHHccccccHccccHHHHcccHHHHcHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccHHcccccEEEccccEEEEEccccEHEHcHHHHHHHHcccHHHHHHHHHHHHccccccccccEEEEEccccHHHHHHHHHHHHHHHHEcccccccccEEEcccEEEEEEEccccccccHHEEccc
Coil and Loop (DISEMBL)
mtdenqvdvkdevaelapfdptkkkkkkkvviqdpsddsvDKLAEKTETLSVSEGLESTFtglkkkkkkpvessllndeigdagddldghvgeddeadgsggprqrypwegsdrdYEYEELLGRVFNILRennpelagdrrrtvmrppqvlregtkkTVFVNFMDLCKTMHRQPDHVMTFLLAElgtsgsldgqqrlvvkgrfapknfEGILRRYVNEYVIClgckspdtilskENRLFFLRCEKVKAHIQSYYLCPI
Flexible Loop (DISEMBL)
mtdenqvdvkdevaelapfdptkkkkkkkvviqdpsddsvdklaektetlsvseglestftglkkkkkkpvessllndeigdagddldghvgeddeadgsggprqrypwegsDRDYEYEELLGRVFNILRennpelagdrrrtvmrppqvlregtkktVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIqsyylcpi
Low Complexity Region (SEG)
MTDENQVDVKDEVAELAPFDPTkkkkkkkVVIQDPSDDSVDKLAEKTETLSVSEGLESTFTGLkkkkkkPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYLCPI
Disordered region (IsUnstruct)
******************************************************************************************************************DYEYEELLGRVFNILRE*******************LREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYLC**
Disordered Region (DISOPRED)
****************APF*******************************************************************************************GSDRDYEYEELLGRVFNILRE*********RRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSY*LCP*
Disordered Region (DISEMBL)
********VKDEVAELAPFDP********************KLAEKTETLSVSEGLESTF*************SLLNDEIGDAGDDLDGHVG************QRYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYLCPI
Disordered Region (DISPRO)
*******DVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLA******************************************************************GSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHI********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTFTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYLCPI
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	258	2.2.26 [Sep-21-2011]
P55871	271	Eukaryotic translation in	N/A	no	0.949	0.904	0.813	1e-106
O24473	270	Eukaryotic translation in	N/A	no	0.980	0.937	0.753	2e-99
Q41969	268	Eukaryotic translation in	yes	no	0.961	0.925	0.752	2e-98
Q99L45	331	Eukaryotic translation in	yes	no	0.589	0.459	0.607	2e-53
Q5R4T9	333	Eukaryotic translation in	yes	no	0.612	0.474	0.587	4e-53
P41035	333	Eukaryotic translation in	yes	no	0.569	0.441	0.630	4e-53
P20042	333	Eukaryotic translation in	yes	no	0.569	0.441	0.630	4e-53
Q5E9D0	333	Eukaryotic translation in	yes	no	0.569	0.441	0.630	4e-53
P41375	312	Eukaryotic translation in	yes	no	0.627	0.519	0.564	6e-51
P56329	321	Probable eukaryotic trans	yes	no	0.639	0.514	0.549	4e-48

>sp|P55871|IF2B_MALDO Eukaryotic translation initiation factor 2 subunit beta OS=Malus domestica PE=2 SV=2

 Score =  384 bits (987), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 200/246 (81%), Positives = 217/246 (88%), Gaps = 1/246 (0%)

Query: 1   MTDENQVDVKDEV-AELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLEST 59
           M D+NQ +VKDEV A++APFDPTKKKKKK+VVIQD +DDSV KLAEK E  + SEG EST
Sbjct: 1   MADDNQNEVKDEVVADIAPFDPTKKKKKKEVVIQDTTDDSVGKLAEKAEACTASEGQEST 60

Query: 60  FTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           F GLKKKKKKP+E+S+LN+E GDA +DL+   GED+E +G       YPWEGSDRDY YE
Sbjct: 61  FAGLKKKKKKPIETSILNEESGDAVEDLNERTGEDEEGEGIVLETPSYPWEGSDRDYTYE 120

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELL RVF ILRENNP+LAGDRRRTVMRPPQVLREGTKK VFVNFMDLCKTMHRQPDHVM 
Sbjct: 121 ELLDRVFTILRENNPDLAGDRRRTVMRPPQVLREGTKKAVFVNFMDLCKTMHRQPDHVMA 180

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGC+SPDTILSKENRLF
Sbjct: 181 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCQSPDTILSKENRLF 240

Query: 240 FLRCEK 245
           FLRCEK
Sbjct: 241 FLRCEK 246

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.
Malus domestica (taxid: 3750)

>sp|O24473|IF2B_WHEAT Eukaryotic translation initiation factor 2 subunit beta OS=Triticum aestivum PE=1 SV=1

 Score =  362 bits (928), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 196/260 (75%), Positives = 219/260 (84%), Gaps = 7/260 (2%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DE Q++ K+E  E+APFDPTKKKKKKKVVIQDP+D+ VDKLAEKTE LSV+E  E++F
Sbjct: 1   MADEEQMERKEEATEIAPFDPTKKKKKKKVVIQDPADE-VDKLAEKTEGLSVTESGEASF 59

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGS--GGPRQRYPWEGSDRDYEY 118
            GLKKKKKK VE      E GD  D LD  VGED++ +G   GG  Q YPWEG+DRDY+Y
Sbjct: 60  VGLKKKKKKLVELDPSLVEAGDGEDTLDDQVGEDEQGEGIVLGGATQ-YPWEGTDRDYKY 118

Query: 119 EELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM 178
           +ELLGRVFNILRENNP+LAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQP+HVM
Sbjct: 119 DELLGRVFNILRENNPDLAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPEHVM 178

Query: 179 TFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRL 238
            FLLAE+GTSGSLDGQQRLV+KGRFAPKNFE ILRRY+NEYVIC GCKSPDTILSKENRL
Sbjct: 179 MFLLAEMGTSGSLDGQQRLVIKGRFAPKNFEAILRRYINEYVICHGCKSPDTILSKENRL 238

Query: 239 FFLRCEKVKAHIQSYYLCPI 258
           FFLRCE+  +   S  + PI
Sbjct: 239 FFLRCEQCGS---SRSVAPI 255

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Triticum aestivum (taxid: 4565)

>sp|Q41969|IF2B_ARATH Eukaryotic translation initiation factor 2 subunit beta OS=Arabidopsis thaliana GN=EMB1401 PE=2 SV=3

 Score =  358 bits (920), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 188/250 (75%), Positives = 216/250 (86%), Gaps = 2/250 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDK-LAEKTETLSVSEGLEST 59
           M DE   ++++E  +LAPFDP+KKKKKKKVVIQ+P +D  +    EK+++L V++GLES+
Sbjct: 1   MADEIN-EIREEQEQLAPFDPSKKKKKKKVVIQEPVEDLAESSQTEKSDSLPVNDGLESS 59

Query: 60  FTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           FTG+KKKKKKP ESSLLN+E  DAG+DLD    ++ E +     +QRYPWEGS+RDY Y+
Sbjct: 60  FTGMKKKKKKPTESSLLNNESVDAGEDLDEIANDEQEGEEGIVLQQRYPWEGSERDYIYD 119

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM 
Sbjct: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMQ 179

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           +LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY+ +YVICLGCKSPDTILSKENRLF
Sbjct: 180 YLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYITDYVICLGCKSPDTILSKENRLF 239

Query: 240 FLRCEKVKAH 249
           FLRCEK  + 
Sbjct: 240 FLRCEKCGSQ 249

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Arabidopsis thaliana (taxid: 3702)

>sp|Q99L45|IF2B_MOUSE Eukaryotic translation initiation factor 2 subunit 2 OS=Mus musculus GN=Eif2s2 PE=1 SV=1

 Score =  208 bits (530), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 93/153 (60%), Positives = 117/153 (76%), Gaps = 1/153 (0%)

Query: 93  EDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPEL-AGDRRRTVMRPPQVL 151
           ED + D       +  W GS+RDY YEELL RVFNI+RE NP++ AG++R+ VM+PPQV+
Sbjct: 149 EDSKKDDGISFSSQTAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVV 208

Query: 152 REGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGI 211
           R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +LV+KGRF  K  E +
Sbjct: 209 RVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENV 268

Query: 212 LRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
           LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct: 269 LRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 301

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Mus musculus (taxid: 10090)

>sp|Q5R4T9|IF2B_PONAB Eukaryotic translation initiation factor 2 subunit 2 OS=Pongo abelii GN=EIF2S2 PE=2 SV=1

 Score =  208 bits (529), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 94/160 (58%), Positives = 119/160 (74%), Gaps = 2/160 (1%)

Query: 98  DGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL-AGDRRRTVMRPPQVLREGT 155
           DG     Q  P W GS+RDY YEELL RVFNI+RE NP++ AG++R+ VM+PPQV+R GT
Sbjct: 155 DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGT 214

Query: 156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY 215
           KKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +LV+KGRF  K  E +LRRY
Sbjct: 215 KKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRY 274

Query: 216 VNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYYL 255
           + EYV C  C+SPDTIL K+ RL+FL+CE   +   +  +
Sbjct: 275 IKEYVTCHTCRSPDTILQKDTRLYFLQCETCHSRCSAASI 314

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Pongo abelii (taxid: 9601)

>sp|P41035|IF2B_RABIT Eukaryotic translation initiation factor 2 subunit 2 OS=Oryctolagus cuniculus GN=EIF2S2 PE=1 SV=1

 Score =  207 bits (528), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 94/149 (63%), Positives = 116/149 (77%), Gaps = 2/149 (1%)

Query: 98  DGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL-AGDRRRTVMRPPQVLREGT 155
           DG     Q  P W GS+RDY YEELL RVFNI+RE NP++ AG++R+ VM+PPQV+R GT
Sbjct: 155 DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGT 214

Query: 156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY 215
           KKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +LV+KGRF  K  E +LRRY
Sbjct: 215 KKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRY 274

Query: 216 VNEYVICLGCKSPDTILSKENRLFFLRCE 244
           + EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct: 275 IKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Oryctolagus cuniculus (taxid: 9986)

>sp|P20042|IF2B_HUMAN Eukaryotic translation initiation factor 2 subunit 2 OS=Homo sapiens GN=EIF2S2 PE=1 SV=2

 Score =  207 bits (528), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 94/149 (63%), Positives = 116/149 (77%), Gaps = 2/149 (1%)

Query: 98  DGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL-AGDRRRTVMRPPQVLREGT 155
           DG     Q  P W GS+RDY YEELL RVFNI+RE NP++ AG++R+ VM+PPQV+R GT
Sbjct: 155 DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGT 214

Query: 156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY 215
           KKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +LV+KGRF  K  E +LRRY
Sbjct: 215 KKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRY 274

Query: 216 VNEYVICLGCKSPDTILSKENRLFFLRCE 244
           + EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct: 275 IKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Homo sapiens (taxid: 9606)

>sp|Q5E9D0|IF2B_BOVIN Eukaryotic translation initiation factor 2 subunit 2 OS=Bos taurus GN=EIF2S2 PE=2 SV=1

 Score =  207 bits (528), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 94/149 (63%), Positives = 116/149 (77%), Gaps = 2/149 (1%)

Query: 98  DGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL-AGDRRRTVMRPPQVLREGT 155
           DG     Q  P W GS+RDY YEELL RVFNI+RE NP++ AG++R+ VM+PPQV+R GT
Sbjct: 155 DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGT 214

Query: 156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY 215
           KKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +LV+KGRF  K  E +LRRY
Sbjct: 215 KKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRY 274

Query: 216 VNEYVICLGCKSPDTILSKENRLFFLRCE 244
           + EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct: 275 IKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Bos taurus (taxid: 9913)

>sp|P41375|IF2B_DROME Eukaryotic translation initiation factor 2 subunit 2 OS=Drosophila melanogaster GN=eIF-2beta PE=1 SV=1

 Score =  201 bits (510), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 96/170 (56%), Positives = 121/170 (71%), Gaps = 8/170 (4%)

Query: 76  LNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPE 135
           L++   D  DD      E+DE + S        W GSDRDY Y+ELL RVF I+ + NP+
Sbjct: 120 LDELFADQADDDKSEDKENDEDNSS-------TWFGSDRDYTYDELLKRVFEIILDKNPD 172

Query: 136 LAGDRR-RTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQ 194
           +A  R+ + VMRPPQVLR GTKKT F NFMD+ KT+HR P H++ FLLAELGTSGS+DG 
Sbjct: 173 MAAGRKPKFVMRPPQVLRVGTKKTSFANFMDIAKTLHRLPKHLLDFLLAELGTSGSMDGN 232

Query: 195 QRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
           Q+L++KGRF PK  E +LRRY+ EYV C  C+SP+TIL K+ RLFFL+CE
Sbjct: 233 QQLIIKGRFQPKQIENVLRRYIKEYVTCHTCRSPETILQKDTRLFFLQCE 282

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This preinitiation complex mediates ribosomal recognition of a start codon during the scanning process of the leader region.

Drosophila melanogaster (taxid: 7227)

>sp|P56329|IF2B_SCHPO Probable eukaryotic translation initiation factor 2 subunit beta OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tif212 PE=1 SV=2

 Score =  191 bits (486), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 95/173 (54%), Positives = 112/173 (64%), Gaps = 8/173 (4%)

Query: 72  ESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRE 131
           E  L     GDA  DL      D E  G       + W  SDRDY Y ELL R F +LR 
Sbjct: 131 EKELEASSTGDATSDLSKQTF-DSENMG------EHAWLKSDRDYYYPELLNRFFTLLRT 183

Query: 132 NNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSL 191
           NNPELAG++R+  + PP V REG KKT+F N  D+ K MHR  DHV+ FL AELGTSGS+
Sbjct: 184 NNPELAGEKRKYTIVPPSVHREG-KKTIFANISDISKRMHRSLDHVIQFLFAELGTSGSV 242

Query: 192 DGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
           DG  RL++KGRF  K  E +LRRY+ EYV C  CKSPDTIL+KENR+FF+ CE
Sbjct: 243 DGSSRLIIKGRFQQKQIENVLRRYIVEYVTCKTCKSPDTILTKENRIFFMTCE 295

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. This complex binds to a 40S ribosomal subunit, followed by mRNA binding to form a 43S preinitiation complex. Junction of the 60S ribosomal subunit to form the 80S initiation complex is preceded by hydrolysis of the GTP bound to eIF-2 and release of an eIF-2-GDP binary complex. In order for eIF-2 to recycle and catalyze another round of initiation, the GDP bound to eIF-2 must exchange with GTP by way of a reaction catalyzed by eIF-2B.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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	258
297745750	290	unnamed protein product [Vitis vinifera]	0.945	0.841	0.869	1e-112
225434323	269	PREDICTED: eukaryotic translation initia	0.945	0.907	0.869	1e-112
224126981	270	predicted protein [Populus trichocarpa]	0.945	0.903	0.841	1e-109
118488478	270	unknown [Populus trichocarpa]	0.945	0.903	0.837	1e-109
449529178	270	PREDICTED: eukaryotic translation initia	0.945	0.903	0.833	1e-107
356499030	354	PREDICTED: eukaryotic translation initia	0.941	0.686	0.840	1e-107
255648391	268	unknown [Glycine max]	0.941	0.906	0.836	1e-105
449443396	269	PREDICTED: eukaryotic translation initia	0.941	0.903	0.829	1e-105
356553184	268	PREDICTED: eukaryotic translation initia	0.941	0.906	0.836	1e-105
255637249	268	unknown [Glycine max]	0.941	0.906	0.832	1e-105

>gi|297745750|emb|CBI15806.3| unnamed protein product [Vitis vinifera]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 213/245 (86%), Positives = 230/245 (93%), Gaps = 1/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DENQ +VKDEVAELAPFDPTKKKKKKKVVIQDP+DDSVDKLAEKTE+LSVSEG+E+TF
Sbjct: 22  MADENQNEVKDEVAELAPFDPTKKKKKKKVVIQDPADDSVDKLAEKTESLSVSEGVENTF 81

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
           +G+KKKKKKPVE+ +LND+ GD  +DLD H GED+E +G    + RYPWEGSDRDY+YEE
Sbjct: 82  SGMKKKKKKPVETDILNDDGGDGKEDLDDHNGEDEEGEGIV-LQPRYPWEGSDRDYKYEE 140

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 141 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 200

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY+NEYVICLGCKSPDTILSKENRLFF
Sbjct: 201 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYINEYVICLGCKSPDTILSKENRLFF 260

Query: 241 LRCEK 245
           LRCE+
Sbjct: 261 LRCEQ 265

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225434323|ref|XP_002265847.1| PREDICTED: eukaryotic translation initiation factor 2 subunit beta [Vitis vinifera]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 213/245 (86%), Positives = 230/245 (93%), Gaps = 1/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DENQ +VKDEVAELAPFDPTKKKKKKKVVIQDP+DDSVDKLAEKTE+LSVSEG+E+TF
Sbjct: 1   MADENQNEVKDEVAELAPFDPTKKKKKKKVVIQDPADDSVDKLAEKTESLSVSEGVENTF 60

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
           +G+KKKKKKPVE+ +LND+ GD  +DLD H GED+E +G    + RYPWEGSDRDY+YEE
Sbjct: 61  SGMKKKKKKPVETDILNDDGGDGKEDLDDHNGEDEEGEGIV-LQPRYPWEGSDRDYKYEE 119

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 120 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 179

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY+NEYVICLGCKSPDTILSKENRLFF
Sbjct: 180 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYINEYVICLGCKSPDTILSKENRLFF 239

Query: 241 LRCEK 245
           LRCE+
Sbjct: 240 LRCEQ 244

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126981|ref|XP_002319977.1| predicted protein [Populus trichocarpa] gi|222858353|gb|EEE95900.1| predicted protein [Populus trichocarpa]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/246 (84%), Positives = 230/246 (93%), Gaps = 2/246 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M D+N  D+KDEVAELAPFDPTKKKKKKKVVIQ+ +D+SVD LAEKTE+LSVS+GLES+F
Sbjct: 1   MADDN-TDLKDEVAELAPFDPTKKKKKKKVVIQENADESVDSLAEKTESLSVSDGLESSF 59

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGD-DLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           TGLKKKKKKPVE+SLL++E GDAG+ DLD H GE++  +G+   +QR+PW+G+DRDY+YE
Sbjct: 60  TGLKKKKKKPVETSLLDEETGDAGEEDLDVHAGEEENGEGADLQQQRFPWDGTDRDYDYE 119

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQ DHVM 
Sbjct: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQADHVMA 179

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           FLLAELGTSGSLDGQQRLV+KGRFAPKNFEGILRRY+NEYVICLGCKSPDTILSKENRLF
Sbjct: 180 FLLAELGTSGSLDGQQRLVIKGRFAPKNFEGILRRYINEYVICLGCKSPDTILSKENRLF 239

Query: 240 FLRCEK 245
           FLRCEK
Sbjct: 240 FLRCEK 245

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488478|gb|ABK96053.1| unknown [Populus trichocarpa]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 206/246 (83%), Positives = 230/246 (93%), Gaps = 2/246 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M D+N  D+KDEVAELAPFDPTKKKKK+KVVIQ+ +D+SVD LAEKTE+LSVS+GLES+F
Sbjct: 1   MADDN-TDLKDEVAELAPFDPTKKKKKEKVVIQENADESVDSLAEKTESLSVSDGLESSF 59

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGD-DLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           TGLKKKKKKPVE+SLL++E GDAG+ DLD H GE++  +G+   +QR+PW+G+DRDY+YE
Sbjct: 60  TGLKKKKKKPVETSLLDEETGDAGEEDLDVHAGEEENGEGADLQQQRFPWDGTDRDYDYE 119

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQ DHVM 
Sbjct: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQADHVMA 179

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           FLLAELGTSGSLDGQQRLV+KGRFAPKNFEGILRRY+NEYVICLGCKSPDTILSKENRLF
Sbjct: 180 FLLAELGTSGSLDGQQRLVIKGRFAPKNFEGILRRYINEYVICLGCKSPDTILSKENRLF 239

Query: 240 FLRCEK 245
           FLRCEK
Sbjct: 240 FLRCEK 245

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449529178|ref|XP_004171578.1| PREDICTED: eukaryotic translation initiation factor 2 subunit beta-like [Cucumis sativus]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/246 (83%), Positives = 227/246 (92%), Gaps = 2/246 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLES-T 59
           M DE Q DV D+VA++APFDPTKKKKKKKVV+QDP+D+SVDKLAEKTE+LSVS+GLE+ T
Sbjct: 1   MADEVQNDVNDQVADIAPFDPTKKKKKKKVVLQDPTDESVDKLAEKTESLSVSDGLEAAT 60

Query: 60  FTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           F+GLKKKKKKPVE+S LN++  DA +DL+   GE+++ +G    + RYPWEG+DRDYEYE
Sbjct: 61  FSGLKKKKKKPVEASSLNEDGADATEDLEDQAGENEDREGLV-LQYRYPWEGTDRDYEYE 119

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM 
Sbjct: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMA 179

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVIC+GCKSPDTILSKENRLF
Sbjct: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICIGCKSPDTILSKENRLF 239

Query: 240 FLRCEK 245
           FLRCEK
Sbjct: 240 FLRCEK 245

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499030|ref|XP_003518347.1| PREDICTED: eukaryotic translation initiation factor 2 subunit beta-like [Glycine max]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/245 (84%), Positives = 218/245 (88%), Gaps = 2/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DE   ++K+EV E+ PFDPTKKKKKKK+ I DP+DD V+KLAEKTE LSVSEG+E+ F
Sbjct: 87  MADETPNEMKEEVPEIVPFDPTKKKKKKKITIVDPADDPVEKLAEKTENLSVSEGVETAF 146

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
            GLKKKKKKPVE S LNDE GDA +DLD H  EDDE +    P  RYPWEGSDRDYEYEE
Sbjct: 147 AGLKKKKKKPVEMSNLNDESGDANEDLDDH-PEDDEGEVVA-PEARYPWEGSDRDYEYEE 204

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 205 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 264

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTIL+KENRLFF
Sbjct: 265 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILTKENRLFF 324

Query: 241 LRCEK 245
           LRCEK
Sbjct: 325 LRCEK 329

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255648391|gb|ACU24646.1| unknown [Glycine max]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 205/245 (83%), Positives = 216/245 (88%), Gaps = 2/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DE   ++K+EV E+ PFDPTKKKKKKK+ I DP+DD V+KLAEKTE LSVSEG+E+ F
Sbjct: 1   MADETPNEMKEEVPEIVPFDPTKKKKKKKITIVDPADDPVEKLAEKTENLSVSEGVETAF 60

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
            GLKKKKKKPVE S LNDE GDA +DLD H  EDDE  G   P  RYPWEGSDRDYEYEE
Sbjct: 61  AGLKKKKKKPVEMSNLNDESGDANEDLDDH-PEDDEG-GVVAPEARYPWEGSDRDYEYEE 118

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 119 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 178

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTIL+KENRL F
Sbjct: 179 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILTKENRLSF 238

Query: 241 LRCEK 245
            RCEK
Sbjct: 239 FRCEK 243

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443396|ref|XP_004139463.1| PREDICTED: eukaryotic translation initiation factor 2 subunit beta-like [Cucumis sativus]

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/246 (82%), Positives = 226/246 (91%), Gaps = 3/246 (1%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLES-T 59
           M DE Q DV D+VA++APFDPTKKKKKK VV+QDP+D+SVDKLAEKTE+LSVS+GLE+ T
Sbjct: 1   MADEVQNDVNDQVADIAPFDPTKKKKKK-VVLQDPTDESVDKLAEKTESLSVSDGLEAAT 59

Query: 60  FTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
           F+GLKKKKKKPVE+S LN++  DA +DL+   GE+++ +G    + RYPWEG+DRDYEYE
Sbjct: 60  FSGLKKKKKKPVEASSLNEDGADATEDLEDQAGENEDREGLV-LQYRYPWEGTDRDYEYE 118

Query: 120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
           ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM 
Sbjct: 119 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMA 178

Query: 180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
           FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVIC+GCKSPDTILSKENRLF
Sbjct: 179 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICIGCKSPDTILSKENRLF 238

Query: 240 FLRCEK 245
           FLRCEK
Sbjct: 239 FLRCEK 244

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356553184|ref|XP_003544938.1| PREDICTED: eukaryotic translation initiation factor 2 subunit beta-like [Glycine max]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 205/245 (83%), Positives = 219/245 (89%), Gaps = 2/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DE   ++K+EV E+ PFDPTKKKKKKK+ I DP+D+ V+KLAEKTE LSVSEG+E+ F
Sbjct: 1   MADETPNEMKEEVPEIVPFDPTKKKKKKKITIVDPADEPVEKLAEKTENLSVSEGVETAF 60

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
           TGLKKKKKKPVE   LNDE GDA +DLD H  EDDE +    P+ RYPWEGSDR+YEYEE
Sbjct: 61  TGLKKKKKKPVEMGNLNDESGDAIEDLDDH-PEDDEGEMVV-PQARYPWEGSDRNYEYEE 118

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 119 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 178

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF
Sbjct: 179 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 238

Query: 241 LRCEK 245
           LRCEK
Sbjct: 239 LRCEK 243

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637249|gb|ACU18955.1| unknown [Glycine max]

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/245 (83%), Positives = 218/245 (88%), Gaps = 2/245 (0%)

Query: 1   MTDENQVDVKDEVAELAPFDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGLESTF 60
           M DE   ++K+EV E+ PFDPTKKKKKKK+ I DP+D+ V+KLAEKTE LSVSEG+E+ F
Sbjct: 1   MADETPNEMKEEVPEIVPFDPTKKKKKKKITIVDPADEPVEKLAEKTENLSVSEGVETAF 60

Query: 61  TGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEE 120
           TGLKKKKKKPVE   LNDE GDA +DLD H  EDDE +    P+ RYPWEGSDR+YEYEE
Sbjct: 61  TGLKKKKKKPVEMGNLNDESGDAIEDLDDH-PEDDEGEMVV-PQARYPWEGSDRNYEYEE 118

Query: 121 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTF 180
           LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM F
Sbjct: 119 LLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMAF 178

Query: 181 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 240
           LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF
Sbjct: 179 LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFF 238

Query: 241 LRCEK 245
            RCEK
Sbjct: 239 FRCEK 243

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	258
TAIR|locus:2147162	268	EIF2 BETA "eukaryotic translat	0.945	0.910	0.711	1.2e-90
UNIPROTKB|F1PZ47	333	EIF2S2 "Uncharacterized protei	0.639	0.495	0.585	4.6e-50
UNIPROTKB|P20042	333	EIF2S2 "Eukaryotic translation	0.639	0.495	0.585	4.6e-50
UNIPROTKB|F1S4Y8	328	EIF2S2 "Uncharacterized protei	0.639	0.503	0.585	4.6e-50
UNIPROTKB|P41035	333	EIF2S2 "Eukaryotic translation	0.639	0.495	0.585	4.6e-50
UNIPROTKB|Q4R5G5	333	Q4R5G5 "Macaca fascicularis br	0.639	0.495	0.585	4.6e-50
RGD|735192	333	Eif2s2 "eukaryotic translation	0.639	0.495	0.585	4.6e-50
UNIPROTKB|Q5E9D0	333	EIF2S2 "Eukaryotic translation	0.639	0.495	0.579	5.8e-50
MGI|MGI:1914454	331	Eif2s2 "eukaryotic translation	0.635	0.495	0.577	1.5e-49
ZFIN|ZDB-GENE-030131-3085	327	eif2s2 "eukaryotic translation	0.627	0.495	0.592	3.2e-49

TAIR|locus:2147162 EIF2 BETA "eukaryotic translation initiation factor 2 beta subunit" [Arabidopsis thaliana (taxid:3702)]

 Score = 904 (323.3 bits), Expect = 1.2e-90, P = 1.2e-90
 Identities = 175/246 (71%), Positives = 202/246 (82%)

Query:     1 MTDENQVDVKDEVAELAPFDPTXXXXXXXVVIQDPSDDSVDKL-AEKTETLSVSEGLEST 59
             M DE   ++++E  +LAPFDP+       VVIQ+P +D  +    EK+++L V++GLES+
Sbjct:     1 MADEIN-EIREEQEQLAPFDPSKKKKKKKVVIQEPVEDLAESSQTEKSDSLPVNDGLESS 59

Query:    60 FTGLXXXXXXPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYE 119
             FTG+      P ESSLLN+E  DAG+DLD    ++ E +     +QRYPWEGS+RDY Y+
Sbjct:    60 FTGMKKKKKKPTESSLLNNESVDAGEDLDEIANDEQEGEEGIVLQQRYPWEGSERDYIYD 119

Query:   120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMT 179
             ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVM 
Sbjct:   120 ELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMQ 179

Query:   180 FLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLF 239
             +LLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRY+ +YVICLGCKSPDTILSKENRLF
Sbjct:   180 YLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYITDYVICLGCKSPDTILSKENRLF 239

Query:   240 FLRCEK 245
             FLRCEK
Sbjct:   240 FLRCEK 245

GO:0003743 "translation initiation factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006413 "translational initiation" evidence=IEA;ISS

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

UNIPROTKB|F1PZ47 EIF2S2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEILEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0003743 "translation initiation factor activity" evidence=IEA

UNIPROTKB|P20042 EIF2S2 "Eukaryotic translation initiation factor 2 subunit 2" [Homo sapiens (taxid:9606)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEILEKDEALEDEDNKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0046872 "metal ion binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IDA

GO:0003723 "RNA binding" evidence=TAS

GO:0005850 "eukaryotic translation initiation factor 2 complex" evidence=TAS

GO:0008135 "translation factor activity, nucleic acid binding" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1S4Y8 EIF2S2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   132 DEILEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 189

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   190 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 249

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   250 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 298

GO:0003743 "translation initiation factor activity" evidence=IEA

UNIPROTKB|P41035 EIF2S2 "Eukaryotic translation initiation factor 2 subunit 2" [Oryctolagus cuniculus (taxid:9986)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEILEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0003743 "translation initiation factor activity" evidence=ISS

UNIPROTKB|Q4R5G5 Q4R5G5 "Macaca fascicularis brain cDNA clone: QorA-11002, similar to human eukaryotic translation initiation factor 2, subunit 2beta, 38kDa (EIF2S2), mRNA, RefSeq: NM_003908.2" [Macaca fascicularis (taxid:9541)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEILEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0003743 "translation initiation factor activity" evidence=ISS

RGD|735192 Eif2s2 "eukaryotic translation initiation factor 2, subunit 2 beta" [Rattus norvegicus (taxid:10116)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 99/169 (58%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DEI +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEILEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0001701 "in utero embryonic development" evidence=ISO

GO:0002176 "male germ cell proliferation" evidence=ISO

GO:0003743 "translation initiation factor activity" evidence=ISO;ISS

GO:0008584 "male gonad development" evidence=ISO

UNIPROTKB|Q5E9D0 EIF2S2 "Eukaryotic translation initiation factor 2 subunit 2" [Bos taurus (taxid:9913)]

 Score = 520 (188.1 bits), Expect = 5.8e-50, P = 5.8e-50
 Identities = 98/169 (57%), Positives = 125/169 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL 136
             DE+ +  + L+    + D  DG     Q  P W GS+RDY YEELL RVFNI+RE NP++
Sbjct:   137 DEVLEKDEALEDEDSKKD--DGISFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDM 194

Query:   137 -AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ 195
              AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  
Sbjct:   195 VAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNN 254

Query:   196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             +LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   255 QLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 303

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:1914454 Eif2s2 "eukaryotic translation initiation factor 2, subunit 2 (beta)" [Mus musculus (taxid:10090)]

 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 97/168 (57%), Positives = 124/168 (73%)

Query:    78 DEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNILRENNPEL- 136
             DEI +  + L+    ED + D       +  W GS+RDY YEELL RVFNI+RE NP++ 
Sbjct:   137 DEILEKDEALED---EDSKKDDGISFSSQTAWAGSERDYTYEELLNRVFNIMREKNPDMV 193

Query:   137 AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQR 196
             AG++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +
Sbjct:   194 AGEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLAFLLAELGTSGSIDGNNQ 253

Query:   197 LVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             LV+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   254 LVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 301

GO:0001701 "in utero embryonic development" evidence=IMP

GO:0002176 "male germ cell proliferation" evidence=IMP

GO:0003743 "translation initiation factor activity" evidence=ISO

GO:0005575 "cellular_component" evidence=ND

GO:0006412 "translation" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0008584 "male gonad development" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

ZFIN|ZDB-GENE-030131-3085 eif2s2 "eukaryotic translation initiation factor 2, subunit 2 beta" [Danio rerio (taxid:7955)]

 Score = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 99/167 (59%), Positives = 124/167 (74%)

Query:    82 DAGDDLDGHVGEDDE--ADGSGGPRQRYP-WEGSDRDYEYEELLGRVFNILRENNPEL-A 137
             D+    DG V +DD   AD      Q  P W GS+RDY Y+ELL RVFNI+RE NP++ A
Sbjct:   132 DSQSKEDG-VEDDDSKNADDITFSTQTGPAWAGSERDYTYDELLNRVFNIMREKNPDMVA 190

Query:   138 GDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRL 197
             G++R+ VM+PPQV+R GTKKT FVNF D+CK +HRQP H++ FLLAELGTSGS+DG  +L
Sbjct:   191 GEKRKFVMKPPQVVRVGTKKTSFVNFTDICKLLHRQPKHLLVFLLAELGTSGSIDGNNQL 250

Query:   198 VVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
             V+KGRF  K  E +LRRY+ EYV C  C+SPDTIL K+ RL+FL+CE
Sbjct:   251 VIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRLYFLQCE 297

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0006413 "translational initiation" 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)
Q41969	IF2B_ARATH	No assigned EC number	0.752	0.9612	0.9253	yes	no
P55871	IF2B_MALDO	No assigned EC number	0.8130	0.9496	0.9040	N/A	no
O24473	IF2B_WHEAT	No assigned EC number	0.7538	0.9806	0.9370	N/A	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	258
smart00653	110	smart00653, eIF2B_5, domain present in translation	6e-64
pfam01873	125	pfam01873, eIF-5_eIF-2B, Domain found in IF2B/IF5	1e-59
PRK03988	138	PRK03988, PRK03988, translation initiation factor	9e-39
COG1601	151	COG1601, GCD7, Translation initiation factor 2, be	1e-37
PRK12336	201	PRK12336, PRK12336, translation initiation factor	3e-35
TIGR00311	133	TIGR00311, aIF-2beta, translation initiation facto	2e-23

>gnl|CDD|214764 smart00653, eIF2B_5, domain present in translation initiation factor eIF2B and eIF5

 Score =  194 bits (496), Expect = 6e-64
 Identities = 67/105 (63%), Positives = 79/105 (75%)

Query: 140 RRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVV 199
             R  M PPQVLREG  KTV VNF D+ K ++R PDHV+ FLLAELGT GS+DG+ RL+V
Sbjct: 1   FYRFKMPPPQVLREGKGKTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDGKGRLIV 60

Query: 200 KGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
            GRF PK  + +LRRY+ EYV+C  C SPDT L KENRLFFL+CE
Sbjct: 61  NGRFTPKKLQDLLRRYIKEYVLCPECGSPDTELIKENRLFFLKCE 105

Length = 110

>gnl|CDD|216754 pfam01873, eIF-5_eIF-2B, Domain found in IF2B/IF5

 Score =  184 bits (469), Expect = 1e-59
 Identities = 63/116 (54%), Positives = 83/116 (71%), Gaps = 1/116 (0%)

Query: 130 RENNPE-LAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTS 188
              NP+ +AGD+ R  M PPQV  EG  KT+ VNF D+ K ++R P+H++ +LLAELGT 
Sbjct: 3   FNQNPDRVAGDKFRFEMPPPQVKIEGKIKTIIVNFSDIAKALNRPPEHLLKYLLAELGTQ 62

Query: 189 GSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCE 244
           GS+DG+ RL+V GRF PK  + +L  Y+ EYV+C  CKSPDT L KENRL FL+C+
Sbjct: 63  GSIDGKGRLIVNGRFTPKKLQDVLDDYIKEYVLCHECKSPDTELIKENRLIFLKCK 118

This family includes the N terminus of eIF-5, and the C terminus of eIF-2 beta. This region corresponds to the whole of the archaebacterial eIF-2 beta homologue. The region contains a putative zinc binding C4 finger. Length = 125

>gnl|CDD|235189 PRK03988, PRK03988, translation initiation factor IF-2 subunit beta; Validated

 Score =  131 bits (332), Expect = 9e-39
 Identities = 56/130 (43%), Positives = 79/130 (60%), Gaps = 6/130 (4%)

Query: 115 DYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQP 174
            Y+YEELL R +  L    PE      R  +  P V  EG + T+  NF ++   ++R P
Sbjct: 4   YYDYEELLDRAYEKL----PEKVFKESRFEVPKPDVRIEGNR-TIIRNFKEIADRLNRDP 58

Query: 175 DHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSK 234
            HV  FLL ELGT+G+++G  RL+++G+F+P+     + RYV EYVIC  C SPDT L K
Sbjct: 59  KHVAKFLLKELGTAGNIEGG-RLILQGKFSPRVINEKIDRYVKEYVICPECGSPDTKLIK 117

Query: 235 ENRLFFLRCE 244
           E R++ L+CE
Sbjct: 118 EGRIWVLKCE 127

Length = 138

>gnl|CDD|224517 COG1601, GCD7, Translation initiation factor 2, beta subunit (eIF-2beta)/eIF-5 N-terminal domain [Translation, ribosomal structure and biogenesis]

 Score =  129 bits (326), Expect = 1e-37
 Identities = 56/135 (41%), Positives = 82/135 (60%), Gaps = 6/135 (4%)

Query: 112 SDRDYEYEELLGRVFNILRENNPELAGDRR-RTVMRPPQVLREGTKKTVFVNFMDLCKTM 170
           S+ + +YEELL R +       PE       R  +  P++ REG  +T+  NF D+ + +
Sbjct: 2   SEMEDDYEELLERAY----SELPEKEVKNDERFRIPEPEINREG-NRTIIRNFGDIAEAL 56

Query: 171 HRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDT 230
           +R P+H++ FL  ELGT+GS+DG+ RLV++G+F+       + RY+ EYV C  C SPDT
Sbjct: 57  NRDPEHLVKFLKKELGTAGSIDGKGRLVLQGKFSDSEIVNEIERYIAEYVKCKECGSPDT 116

Query: 231 ILSKENRLFFLRCEK 245
            L KE RL FL+CE 
Sbjct: 117 ELIKEERLLFLKCEA 131

Length = 151

>gnl|CDD|183451 PRK12336, PRK12336, translation initiation factor IF-2 subunit beta; Provisional

 Score =  124 bits (313), Expect = 3e-35
 Identities = 53/134 (39%), Positives = 76/134 (56%), Gaps = 6/134 (4%)

Query: 116 YEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPD 175
            +YE LL R   +L    PE      R  +  P++  EG K T+  NF ++   ++R PD
Sbjct: 1   MDYESLLDRAMEVL----PEPTKSGERFSIPEPKIFIEG-KTTILTNFGEIADALNRDPD 55

Query: 176 HVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKE 235
           H+M FL  ELGT+G ++G  R V  G+F  ++ +  +  YV+EYVIC  C  PDT L KE
Sbjct: 56  HLMKFLQRELGTAGKIEGG-RAVFNGKFTEEDIQAAIDAYVDEYVICSECGLPDTRLVKE 114

Query: 236 NRLFFLRCEKVKAH 249
           +R+  LRC+   AH
Sbjct: 115 DRVLMLRCDACGAH 128

Length = 201

>gnl|CDD|129411 TIGR00311, aIF-2beta, translation initiation factor aIF-2, beta subunit, putative

 Score = 91.8 bits (228), Expect = 2e-23
 Identities = 46/132 (34%), Positives = 76/132 (57%), Gaps = 6/132 (4%)

Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
           +YE+LL R  + L    P+   + +R  +    ++ EG + T+  NF ++ K ++R   H
Sbjct: 1   DYEKLLERAIDQL----PDEVFETKRFEVPKAYIVIEGNR-TIIQNFREVAKALNRDEQH 55

Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
           ++ +LL ELGT+G+L+G  RL+++G+F        +  YV +YVIC  C  PDT + KE 
Sbjct: 56  LLKYLLKELGTAGNLEGG-RLILQGKFTHFLLNERIEDYVRKYVICRECNRPDTRIIKEG 114

Query: 237 RLFFLRCEKVKA 248
           R+  L+CE   A
Sbjct: 115 RVSLLKCEACGA 126

The trusted cutoff is set high enough to select only archaeal members. The suggested cutoff is set to include most eukaryotic members but largely exclude the related eIF-5 [Protein synthesis, Translation factors]. Length = 133

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	258
KOG2768	231	consensus Translation initiation factor 2, beta su	100.0
PRK03988	138	translation initiation factor IF-2 subunit beta; V	100.0
TIGR00311	133	aIF-2beta translation initiation factor aIF-2, bet	100.0
PRK12336	201	translation initiation factor IF-2 subunit beta; P	100.0
smart00653	110	eIF2B_5 domain present in translation initiation f	100.0
PF01873	125	eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro:	100.0
COG1601	151	GCD7 Translation initiation factor 2, beta subunit	100.0
KOG2767	400	consensus Translation initiation factor 5 (eIF-5)	99.97
PF09526	71	DUF2387: Probable metal-binding protein (DUF2387);	95.33
TIGR02443	59	conserved hypothetical metal-binding protein. Memb	95.08
PF01253	83	SUI1: Translation initiation factor SUI1; InterPro	93.49
PF14354	61	Lar_restr_allev: Restriction alleviation protein L	92.75
PF01096	39	TFIIS_C: Transcription factor S-II (TFIIS); InterP	90.7
smart00440	40	ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo	89.36
PRK00939	99	translation initiation factor Sui1; Reviewed	89.09
cd00474	77	SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation fac	88.1
PRK09710	64	lar restriction alleviation and modification prote	88.08
TIGR03655	53	anti_R_Lar restriction alleviation protein, Lar fa	87.65
PF08271	43	TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013	86.5
TIGR01158	101	SUI1_rel translation initation factor SUI1, putati	85.86
PHA02998	195	RNA polymerase subunit; Provisional	84.85
COG4888	104	Uncharacterized Zn ribbon-containing protein [Gene	84.48
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	81.95
COG2051	67	RPS27A Ribosomal protein S27E [Translation, riboso	81.8
TIGR01159	173	DRP1 density-regulated protein DRP1. This protein	81.22
PF11331	46	DUF3133: Protein of unknown function (DUF3133); In	80.71

>KOG2768 consensus Translation initiation factor 2, beta subunit (eIF-2beta) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.6e-65  Score=453.21  Aligned_cols=197  Identities=63%  Similarity=0.979  Sum_probs=163.7

Q ss_pred             cccccCccccccccccccCCCccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccHHHHHHHHHHHH
Q 025050           50 LSVSEGLESTFTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPWEGSDRDYEYEELLGRVFNIL  129 (258)
Q Consensus        50 ~~~~~~~~~~~~~~KKKKKk~~~~~~~~~e~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~YeeLL~R~~~~L  129 (258)
                      .+++++++..+.++||||||++..+.++++...+.+..++...++.++   ...++..+|.|++++|.|++||.|+|++|
T Consensus        16 ~~~~~~l~~~~~~kKKKKkk~k~~s~~ee~~~~~~e~~~e~~~~~~e~---~~~~~~~~~~g~e~dy~Y~ElL~rvf~il   92 (231)
T KOG2768|consen   16 DEASERLDFLSLKKKKKKKKSKSLSALEEEDVNAGEFADEDKDPDKEV---RQNQQGVSWVGSEPDYTYYELLSRVFNIL   92 (231)
T ss_pred             cchhhcccccccccccccCCCCchhhhHHHHHhccchhhhccChhhcc---ccccccccccccCCCccHHHHHHHHHHHH
Confidence            345556655556666666666544433333222222222111111111   13333499999999999999999999999


Q ss_pred             hhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHHH
Q 025050          130 RENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFE  209 (258)
Q Consensus       130 ~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~ie  209 (258)
                      +++|||++|++.||.|+||||.|+| +||+|+||+|||+.|||+|+||++||++||||+||||+++||||+|+|++++||
T Consensus        93 reknpe~aGe~~k~v~~PPqvlReg-kkT~f~Nf~Dick~mhR~pdHv~~FLlAELgTsGSidg~~rLviKGrfq~kq~e  171 (231)
T KOG2768|consen   93 REKNPELAGEKRKFVMKPPQVLREG-KKTVFVNFADICKTMHRSPDHVMQFLLAELGTSGSIDGQQRLVIKGRFQQKQFE  171 (231)
T ss_pred             HhcCchhcccccceeeCCHHHHhhc-cceeeeeHHHHHHHhccChHHHHHHHHHHhccccccCCCceEEEeccccHHHHH
Confidence            9999999999999999999999999 999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcc
Q 025050          210 GILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       210 ~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      ++||+||.+||+|.+|+||||.|+++||||||+|..||+++
T Consensus       172 ~VLRrYI~eyV~C~~CkSpdt~L~kenRLfFL~C~~cgs~~  212 (231)
T KOG2768|consen  172 NVLRRYIKEYVTCKTCKSPDTILQKENRLFFLRCEKCGSRC  212 (231)
T ss_pred             HHHHHHHHHheEeeecCChhHHhhhhcceEEEEecCCCCee
Confidence            99999999999999999999999999999999999999984

>PRK03988 translation initiation factor IF-2 subunit beta; Validated

Probab=100.00  E-value=6.2e-54  Score=359.24  Aligned_cols=134  Identities=42%  Similarity=0.766  Sum_probs=128.2

Q ss_pred             CccHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCC
Q 025050          115 DYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQ  194 (258)
Q Consensus       115 ~~~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~  194 (258)
                      +|+|++||+|||+.|    |+..++.+||+||+|+|.++| +||+|+||.+||++|||+|+||++||++||||+|+|+ +
T Consensus         4 ~~~Y~~lL~R~~~~l----p~~~~~~~R~~~p~~~v~~eG-~kTvi~Nf~~I~~~L~R~~~hv~ky~~~ELgt~g~i~-~   77 (138)
T PRK03988          4 YYDYEELLDRAYEKL----PEKVFKESRFEVPKPDVRIEG-NRTIIRNFKEIADRLNRDPKHVAKFLLKELGTAGNIE-G   77 (138)
T ss_pred             ccCHHHHHHHHHHHC----ccccCCCcceeCCCCeEEEEc-CcEEEecHHHHHHHHCCCHHHHHHHHHHHhCCceeec-C
Confidence            689999999999999    777778899999999999999 7899999999999999999999999999999999996 5


Q ss_pred             ceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccccc
Q 025050          195 QRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSYY  254 (258)
Q Consensus       195 ~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~~~  254 (258)
                      ++|||+|+|++++|+++|++||++||+|++|+||||.|++++|+++++|+||||+++.-+
T Consensus        78 ~~lii~G~~~~~~i~~~L~~yI~~yVlC~~C~spdT~l~k~~r~~~l~C~ACGa~~~V~~  137 (138)
T PRK03988         78 GRLILQGKFSPRVINEKIDRYVKEYVICPECGSPDTKLIKEGRIWVLKCEACGAETPVKP  137 (138)
T ss_pred             CEEEEEEeeCHHHHHHHHHHHHHhcEECCCCCCCCcEEEEcCCeEEEEcccCCCCCcCCc
Confidence            899999999999999999999999999999999999999999999999999999998643

>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative

Probab=100.00  E-value=5.4e-53  Score=351.68  Aligned_cols=131  Identities=35%  Similarity=0.687  Sum_probs=125.6

Q ss_pred             cHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCce
Q 025050          117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQR  196 (258)
Q Consensus       117 ~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~r  196 (258)
                      +|++||+|||+.|    |+..++.+||+||+|+|.++| +||+|+||.+||++|||+|+||++||++||||+|++++ ++
T Consensus         1 ~Y~~lL~R~~~~l----~~~~~~~~R~~mP~~~v~~eG-~kTvi~Nf~~Ia~~L~R~~~~v~ky~~~ELgt~g~i~~-~r   74 (133)
T TIGR00311         1 DYEKLLERAIDQL----PDEVFETKRFEVPKAYIVIEG-NRTIIQNFREVAKALNRDEQHLLKYLLKELGTAGNLEG-GR   74 (133)
T ss_pred             CHHHHHHHHHHHC----ccccCCCccccCCCceEEEEc-CcEEEecHHHHHHHHCCCHHHHHHHHHHHhCCCceecC-CE
Confidence            5999999999999    776677889999999999999 78999999999999999999999999999999999985 69


Q ss_pred             EEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCccccc
Q 025050          197 LVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQSY  253 (258)
Q Consensus       197 liikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~~  253 (258)
                      |||+|+|++++|+++|++||++||+|++|+||||.|++++|+++++|+||||+++.-
T Consensus        75 lii~G~~~~~~i~~~L~~yI~~yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa~~~v~  131 (133)
T TIGR00311        75 LILQGKFTHFLLNERIEDYVRKYVICRECNRPDTRIIKEGRVSLLKCEACGAKAPLR  131 (133)
T ss_pred             EEEEeecCHHHHHHHHHHHHhheEECCCCCCCCcEEEEeCCeEEEecccCCCCCccC
Confidence            999999999999999999999999999999999999999999999999999999863

>PRK12336 translation initiation factor IF-2 subunit beta; Provisional

Probab=100.00  E-value=1.3e-50  Score=356.41  Aligned_cols=131  Identities=40%  Similarity=0.801  Sum_probs=126.9

Q ss_pred             ccHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCc
Q 025050          116 YEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ  195 (258)
Q Consensus       116 ~~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~  195 (258)
                      |+|++||+|||+.|    |+..++.+||+||+|+|.++| +||+|+||.+||++|||+|+||++||++||||+|+|++ +
T Consensus         1 ~~Y~~lL~r~~~~l----~~~~~~~~R~~~p~~~v~~eG-~kT~i~N~~~i~~~l~R~~~~~~ky~~~ELgt~~~~~~-~   74 (201)
T PRK12336          1 MDYESLLDRAMEVL----PEPTKSGERFSIPEPKIFIEG-KTTILTNFGEIADALNRDPDHLMKFLQRELGTAGKIEG-G   74 (201)
T ss_pred             CCHHHHHHHHHHHC----CcccCCccceecCCceEEEEc-CcEEEecHHHHHHHHCCCHHHHHHHHHHHhCCcceecC-C
Confidence            57999999999999    888888899999999999999 89999999999999999999999999999999999986 5


Q ss_pred             eEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          196 RLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       196 rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      +|||+|+|++++||++|++||++||+|++|+||||.|++++|+++++|.||||+++.
T Consensus        75 ~~ii~G~~~~~~i~~~l~~yi~~yV~C~~C~~pdT~l~k~~~~~~l~C~aCGa~~~v  131 (201)
T PRK12336         75 RAVFNGKFTEEDIQAAIDAYVDEYVICSECGLPDTRLVKEDRVLMLRCDACGAHRPV  131 (201)
T ss_pred             EEEEEeeeCHHHHHHHHHHHHHheEECCCCCCCCcEEEEcCCeEEEEcccCCCCccc
Confidence            999999999999999999999999999999999999999999999999999999875

>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5

Probab=100.00  E-value=8.9e-49  Score=317.10  Aligned_cols=109  Identities=62%  Similarity=1.086  Sum_probs=106.7

Q ss_pred             ceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHHHHHHHHHHHhcc
Q 025050          141 RRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYV  220 (258)
Q Consensus       141 ~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~ie~~L~~YI~eYV  220 (258)
                      +||+||+|+|.++|++||+|+||.|||++|||+|+||++||++||||+|+||++++|||+|+|++++||++|++||++||
T Consensus         2 ~R~~~p~~~v~~eG~~kTvi~Nf~~I~~~L~R~p~hv~kyl~~ELgt~g~id~~~rlii~G~~~~~~i~~~l~~yI~~yV   81 (110)
T smart00653        2 YRFKMPPPQVLREGKGKTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDGKGRLIVNGRFTPKKLQDLLRRYIKEYV   81 (110)
T ss_pred             CccccCCCeEEEEcCCeEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeECCCCeEEEEEeeCHHHHHHHHHHHHHhcE
Confidence            69999999999999669999999999999999999999999999999999999889999999999999999999999999


Q ss_pred             ccCCCCCCCceeEEcCceEEeeeccccCc
Q 025050          221 ICLGCKSPDTILSKENRLFFLRCEKVKAH  249 (258)
Q Consensus       221 lC~~C~sPdT~L~ke~rl~~l~C~aCGa~  249 (258)
                      +|++|+||||.|++++|+++++|+||||+
T Consensus        82 lC~~C~spdT~l~k~~r~~~l~C~aCGa~  110 (110)
T smart00653       82 LCPECGSPDTELIKENRLFFLKCEACGAR  110 (110)
T ss_pred             ECCCCCCCCcEEEEeCCeEEEEccccCCC
Confidence            99999999999999999999999999985

>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []

Probab=100.00  E-value=4e-49  Score=325.31  Aligned_cols=120  Identities=50%  Similarity=0.929  Sum_probs=111.8

Q ss_pred             hcCCCc-ccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHHH
Q 025050          131 ENNPEL-AGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFE  209 (258)
Q Consensus       131 ~~nP~~-~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~ie  209 (258)
                      ++||+. .++..||+||+|+|.++|++||+|+||.|||++|||+|+||++||++||||+|+||++++|||+|+|++++||
T Consensus         4 ~~np~~~~~~~~R~kmP~~~v~~eG~~KTvi~Nf~dI~~~L~R~p~~~~ky~~~ELgt~~~id~~~~lii~G~~~~~~i~   83 (125)
T PF01873_consen    4 EKNPERSNSDKFRYKMPPPQVKIEGKKKTVIVNFVDICKALNRDPEHVLKYFGKELGTQGSIDGKGRLIINGRFSSKQIQ   83 (125)
T ss_dssp             CSSTTTSCSSSSS-CCCT--EEEETSTEEEETTHHHHHHHHTSSHHHHHHHHHHHSSSEEEEETTTEEEEESSSSCCHHH
T ss_pred             HhCcCcccCCCcceecCCCeEEEEccceeeeecHHHHHHHHCCCHHHHHHHHHHHHCCceEECCCCEEEEEEecCHHHHH
Confidence            457984 5565799999999999999999999999999999999999999999999999999988899999999999999


Q ss_pred             HHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcc
Q 025050          210 GILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       210 ~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      ++|++||++||+|++|+||||.|++++|+++++|.||||++
T Consensus        84 ~~L~~fI~~yVlC~~C~spdT~l~k~~r~~~l~C~aCGa~~  124 (125)
T PF01873_consen   84 DLLDKFIKEYVLCPECGSPDTELIKEGRLIFLKCKACGASR  124 (125)
T ss_dssp             HHHHHHHCHHSSCTSTSSSSEEEEEETTCCEEEETTTSCEE
T ss_pred             HHHHHHHHHEEEcCCCCCCccEEEEcCCEEEEEecccCCcC
Confidence            99999999999999999999999999999999999999986

Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....

>COG1601 GCD7 Translation initiation factor 2, beta subunit (eIF-2beta)/eIF-5 N-terminal domain [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.2e-42  Score=291.10  Aligned_cols=135  Identities=42%  Similarity=0.773  Sum_probs=128.4

Q ss_pred             CCCccHHHHHHHHHHHHhhcCCCcccccc-eeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceee
Q 025050          113 DRDYEYEELLGRVFNILRENNPELAGDRR-RTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSL  191 (258)
Q Consensus       113 ~~~~~YeeLL~R~~~~L~~~nP~~~~~~~-R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsi  191 (258)
                      ...+.|++||+|+|..|    |+...... ||.||.|.|.++| ++|++.||.+||++|||+|+|+++||.+||||+|++
T Consensus         3 ~~~~~yeelLeR~~~~l----P~~~~~~~~R~~ip~~~i~~~g-~~Ti~~Nf~dia~~l~rDp~h~~k~l~kel~t~g~~   77 (151)
T COG1601           3 EMEDDYEELLERAYSEL----PEKEVKNDERFRIPEPEINREG-NRTIIRNFGDIAEALNRDPEHLVKFLKKELGTAGSI   77 (151)
T ss_pred             hhhhhHHHHHHHHHHhC----CccccccccceecCCcceeccc-chhHHHhHHHHHHHhcCCHHHHHHHHHHHhcccccc
Confidence            34578999999999766    99877655 9999999999999 999999999999999999999999999999999999


Q ss_pred             cCCceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          192 DGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       192 d~~~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      |+.++|||+|+|++++|++.|++||..||.|++|+||||.|++++|+|+|+|.||||.++-
T Consensus        78 d~~~rlvl~g~f~~~~i~~~i~~yi~~yv~C~~c~s~dt~l~~~~R~~~l~c~acGa~~pv  138 (151)
T COG1601          78 DGKGRLVLQGKFSDSEIVNEIERYIAEYVKCKECGSPDTELIKEERLLFLKCEACGAIRPV  138 (151)
T ss_pred             CCcceEEEEecccHHHHHHHHHHHHHheeEeccCCCCchhhhhhhhhHhhHHHHhCCcccc
Confidence            9988999999999999999999999999999999999999999999999999999999874

>KOG2767 consensus Translation initiation factor 5 (eIF-5) [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=2.3e-33  Score=263.09  Aligned_cols=116  Identities=25%  Similarity=0.443  Sum_probs=109.6

Q ss_pred             ccccceeecCCCeEEEeCc---eeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecC-CceEEEEeecChHHHHHHH
Q 025050          137 AGDRRRTVMRPPQVLREGT---KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDG-QQRLVVKGRFAPKNFEGIL  212 (258)
Q Consensus       137 ~~~~~R~~mp~pqV~reG~---kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~-~~rliikGrf~~k~ie~~L  212 (258)
                      ....|||+||++|++.||+   +||+|+|+.|||++|+|+|-|+++||++|||+|++||. ++|+++||.|.+..||++|
T Consensus        10 ~D~FYRYKMPrl~aKvEGKGNGIKTvIvNm~eIakAL~RPp~Y~tKyFGcELGAQT~fd~kn~ryiVNG~Hd~~KLqdlL   89 (400)
T KOG2767|consen   10 RDPFYRYKMPRLQAKVEGKGNGIKTVIVNMVEIAKALGRPPLYPTKYFGCELGAQTKFDVKNGRYIVNGAHEASKLQDLL   89 (400)
T ss_pred             cchhhhhccchhhhhccccCCCeeeeeecHHHHHHHhCCCCCcccccceeeccccccccccCCeeeecccccHHHHHHHH
Confidence            3457999999999999987   99999999999999999999999999999999999994 7999999999999999999


Q ss_pred             HHHHHhccccCCCCCCCceeEEc-CceEEeeeccccCcccc
Q 025050          213 RRYVNEYVICLGCKSPDTILSKE-NRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       213 ~~YI~eYVlC~~C~sPdT~L~ke-~rl~~l~C~aCGa~~~~  252 (258)
                      +.||++||+|+.|.+|+|.|+.. +..+.+.|.|||.++..
T Consensus        90 dgFIkKFVlC~~C~NPETel~itk~q~i~~~CkACG~r~~~  130 (400)
T KOG2767|consen   90 DGFIKKFVLCPSCENPETELIITKKQTISLKCKACGFRSDM  130 (400)
T ss_pred             HHHHHHheeCcCCCCCceeEEecccchhhhHHHHcCCcccc
Confidence            99999999999999999999975 68889999999998764

>PF09526 DUF2387: Probable metal-binding protein (DUF2387); InterPro: IPR012658 Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N terminus and a probable metal-binding motif CPXCX(18)CXXC

Probab=95.33  E-value=0.011  Score=45.07  Aligned_cols=38  Identities=24%  Similarity=0.618  Sum_probs=31.6

Q ss_pred             HHHHHhccccCCCCCCCceeE-EcCceEEeeeccccCccc
Q 025050          213 RRYVNEYVICLGCKSPDTILS-KENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       213 ~~YI~eYVlC~~C~sPdT~L~-ke~rl~~l~C~aCGa~~~  251 (258)
                      +|||.- ..||.|++.||... +++.+-.+.|-+||.+..
T Consensus         3 krFIAG-a~CP~C~~~D~i~~~~e~~ve~vECV~CGy~e~   41 (71)
T PF09526_consen    3 KRFIAG-AVCPKCQAMDTIMMWRENGVEYVECVECGYTER   41 (71)
T ss_pred             ceEecC-ccCCCCcCccEEEEEEeCCceEEEecCCCCeec
Confidence            456655 78999999999886 688899999999998643

Members are found in various proteobacteria.

>TIGR02443 conserved hypothetical metal-binding protein

Probab=95.08  E-value=0.015  Score=43.08  Aligned_cols=38  Identities=26%  Similarity=0.614  Sum_probs=31.4

Q ss_pred             HHHHHhccccCCCCCCCceeE-EcCceEEeeeccccCccc
Q 025050          213 RRYVNEYVICLGCKSPDTILS-KENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       213 ~~YI~eYVlC~~C~sPdT~L~-ke~rl~~l~C~aCGa~~~  251 (258)
                      +|||.- ..||.|+..||... +++.+-...|-.||.+-.
T Consensus         4 KRFIAG-A~CP~C~~~Dtl~~~~e~~~e~vECv~Cg~~~~   42 (59)
T TIGR02443         4 KRFIAG-AVCPACSAQDTLAMWKENNIELVECVECGYQEQ   42 (59)
T ss_pred             ceEecc-ccCCCCcCccEEEEEEeCCceEEEeccCCCccc
Confidence            456655 78999999999876 689999999999998643

Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various Proteobacteria.

>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []

Probab=93.49  E-value=0.23  Score=37.97  Aligned_cols=57  Identities=9%  Similarity=0.082  Sum_probs=42.7

Q ss_pred             eeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeec----CCceEEEEeecChHHHHHHHHHHH
Q 025050          156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLD----GQQRLVVKGRFAPKNFEGILRRYV  216 (258)
Q Consensus       156 kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid----~~~rliikGrf~~k~ie~~L~~YI  216 (258)
                      .-|++.||.    .-.=+++-+++.|...+|++||+.    ....+.|+|.|...-.+-++.+|+
T Consensus        19 ~vT~V~gl~----~~~~d~~~lak~lkk~~ac~~sv~~~~~k~~~I~iQGd~~~~i~~~L~~~~~   79 (83)
T PF01253_consen   19 FVTIVSGLE----LFGIDLKELAKELKKKFACGGSVTKDPGKGEEIQIQGDHRDEIKDLLVEKGG   79 (83)
T ss_dssp             EEEEEES------STTSHHHHHHHHHHHHHTS-EEEEE-TTTSSEEEEESS-HHHHHHHHHHHCS
T ss_pred             EEEEEECCc----ccccCHHHHHHHHHHhccCceEEeecCCCCCEEEECCcHHHHHHHHHHHhCC
Confidence            668899998    344578999999999999999993    245799999999887777777764

SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.

>PF14354 Lar_restr_allev: Restriction alleviation protein Lar

Probab=92.75  E-value=0.1  Score=37.22  Aligned_cols=28  Identities=21%  Similarity=0.668  Sum_probs=21.8

Q ss_pred             ccCCCCCCCceeEEcCce-----EEeeeccccC
Q 025050          221 ICLGCKSPDTILSKENRL-----FFLRCEKVKA  248 (258)
Q Consensus       221 lC~~C~sPdT~L~ke~rl-----~~l~C~aCGa  248 (258)
                      -||-|+++...+......     +++.|..||+
T Consensus         5 PCPFCG~~~~~~~~~~~~~~~~~~~V~C~~Cga   37 (61)
T PF14354_consen    5 PCPFCGSADVLIRQDEGFDYGMYYYVECTDCGA   37 (61)
T ss_pred             CCCCCCCcceEeecccCCCCCCEEEEEcCCCCC
Confidence            499997777666654333     8999999999

>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=90.70  E-value=0.27  Score=32.99  Aligned_cols=30  Identities=17%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             cccCCCCCCCceeEE-------cCceEEeeeccccCc
Q 025050          220 VICLGCKSPDTILSK-------ENRLFFLRCEKVKAH  249 (258)
Q Consensus       220 VlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~  249 (258)
                      +.||.|++.++...-       +.-.+|..|..||.+
T Consensus         1 ~~Cp~Cg~~~a~~~~~Q~rsaDE~~T~fy~C~~C~~~   37 (39)
T PF01096_consen    1 IKCPKCGHNEAVFFQIQTRSADEPMTLFYVCCNCGHR   37 (39)
T ss_dssp             S--SSS-SSEEEEEEESSSSSSSSSEEEEEESSSTEE
T ss_pred             CCCcCCCCCeEEEEEeeccCCCCCCeEEEEeCCCCCe
Confidence            469999999988873       245889999999975

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....

>smart00440 ZnF_C2C2 C2C2 Zinc finger

Probab=89.36  E-value=0.51  Score=31.84  Aligned_cols=30  Identities=20%  Similarity=0.397  Sum_probs=24.4

Q ss_pred             ccCCCCCCCceeEE-------cCceEEeeeccccCcc
Q 025050          221 ICLGCKSPDTILSK-------ENRLFFLRCEKVKAHI  250 (258)
Q Consensus       221 lC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~~  250 (258)
                      .||.|++.+..+..       +.-.+|..|..||.+.
T Consensus         2 ~Cp~C~~~~a~~~q~Q~RsaDE~mT~fy~C~~C~~~w   38 (40)
T smart00440        2 PCPKCGNREATFFQLQTRSADEPMTVFYVCTKCGHRW   38 (40)
T ss_pred             cCCCCCCCeEEEEEEcccCCCCCCeEEEEeCCCCCEe
Confidence            69999999988753       3458899999999764

Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.

>PRK00939 translation initiation factor Sui1; Reviewed

Probab=89.09  E-value=0.74  Score=37.03  Aligned_cols=56  Identities=16%  Similarity=0.221  Sum_probs=42.7

Q ss_pred             EeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHHHHHHH
Q 025050          152 REGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILR  213 (258)
Q Consensus       152 reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~ie~~L~  213 (258)
                      +-|+.-|+|.||..-    .-++.-+++.|...+|+.|++.+ +.+.|+|.|..... ++|.
T Consensus        34 ~~gK~VTiI~Gl~~~----~~~lk~l~k~lKk~~gcGgsvk~-~~I~iQGD~r~~v~-~~L~   89 (99)
T PRK00939         34 RYGKEVTIIEGIDPK----DIDLKELAKKLKSKLACGGTVKD-GRIELQGDHRERVK-ELLI   89 (99)
T ss_pred             CCCceEEEEeCCCCc----chhHHHHHHHHHHHhCCCceEEC-CEEEEeCcHHHHHH-HHHH
Confidence            445578999999642    12578899999999999999975 47999999876655 4443

>cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation

Probab=88.10  E-value=0.93  Score=34.77  Aligned_cols=54  Identities=13%  Similarity=0.092  Sum_probs=42.5

Q ss_pred             CceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHHHHHH
Q 025050          154 GTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGIL  212 (258)
Q Consensus       154 G~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~ie~~L  212 (258)
                      |+.-|+|.+|..-..    +++-+++.|...+|+.|++.+ +.+.|+|.+.....+-++
T Consensus        12 ~K~VT~I~Gl~~~~~----dlk~l~k~lKk~~~cggtv~~-~~I~lQGD~r~~v~~~L~   65 (77)
T cd00474          12 GKTVTTVQGLDLEYA----DLKKLAKELKKKCACGGTVKD-EVIELQGDQRKKIKEFLI   65 (77)
T ss_pred             CccEEEEECCCCchH----hHHHHHHHHHHHcCCCcEEec-CEEEEeCcHHHHHHHHHH
Confidence            447789999964222    789999999999999999985 599999998776554433

This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown.

>PRK09710 lar restriction alleviation and modification protein; Reviewed

Probab=88.08  E-value=0.57  Score=35.27  Aligned_cols=32  Identities=13%  Similarity=0.337  Sum_probs=27.0

Q ss_pred             ccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          221 ICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       221 lC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      -||-|+-.+-.+.-.++.|+..|..||+..+-
T Consensus         8 PCPFCG~~~~~v~~~~g~~~v~C~~CgA~~~~   39 (64)
T PRK09710          8 PCPFCGCPSVTVKAISGYYRAKCNGCESRTGY   39 (64)
T ss_pred             CCCCCCCceeEEEecCceEEEEcCCCCcCccc
Confidence            49999998877777788889999999998653

>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family

Probab=87.65  E-value=0.52  Score=33.27  Aligned_cols=31  Identities=23%  Similarity=0.434  Sum_probs=22.0

Q ss_pred             ccCCCCCCCceeEE-----cCceEEeeeccccCcccc
Q 025050          221 ICLGCKSPDTILSK-----ENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       221 lC~~C~sPdT~L~k-----e~rl~~l~C~aCGa~~~~  252 (258)
                      -||-|++-+-.+..     +..-++ .|..||++.+.
T Consensus         3 PCPfCGg~~~~~~~~~~~~~~~~~~-~C~~Cga~~~~   38 (53)
T TIGR03655         3 PCPFCGGADVYLRRGFDPLDLSHYF-ECSTCGASGPV   38 (53)
T ss_pred             CCCCCCCcceeeEeccCCCCCEEEE-ECCCCCCCccc
Confidence            49999997765542     223333 99999999875

Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.

>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.50  E-value=0.5  Score=31.94  Aligned_cols=30  Identities=17%  Similarity=0.288  Sum_probs=19.4

Q ss_pred             ccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          221 ICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       221 lC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      .||.|++..  ++-+..--.+.|..||..-.-
T Consensus         2 ~Cp~Cg~~~--~~~D~~~g~~vC~~CG~Vl~e   31 (43)
T PF08271_consen    2 KCPNCGSKE--IVFDPERGELVCPNCGLVLEE   31 (43)
T ss_dssp             SBTTTSSSE--EEEETTTTEEEETTT-BBEE-
T ss_pred             CCcCCcCCc--eEEcCCCCeEECCCCCCEeec
Confidence            599999977  344322236699999986543

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.

>TIGR01158 SUI1_rel translation initation factor SUI1, putative, prokaryotic

Probab=85.86  E-value=1.6  Score=35.10  Aligned_cols=52  Identities=13%  Similarity=0.156  Sum_probs=41.4

Q ss_pred             EeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEeecChHHH
Q 025050          152 REGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNF  208 (258)
Q Consensus       152 reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGrf~~k~i  208 (258)
                      |-|+.-|+|.||..-.    -+++-+++.|...+|+.|++. ++.+.|+|.|.....
T Consensus        35 r~gK~VTvV~Gl~~~~----~~l~~l~k~LKk~~gcGgtvk-~~~IeiQGD~~~~v~   86 (101)
T TIGR01158        35 RKGKGVTIIEGLDLSD----IDLKELAKELKSKCGCGGTVK-DGVIEIQGDHRDRVK   86 (101)
T ss_pred             CCCCEEEEEeCCcCch----hhHHHHHHHHHHHhcCCeeEe-CCEEEEeCcHHHHHH
Confidence            4566889999996322    357889999999999999997 459999999876554

This family of archaeal and bacterial proteins is homologous to the eukaryotic translation intiation factor SUI1 involved in directing the ribosome to the proper start site of translation by functioning in concert with eIF-2 and the initiator tRNA-Met.

>PHA02998 RNA polymerase subunit; Provisional

Probab=84.85  E-value=0.99  Score=40.38  Aligned_cols=81  Identities=21%  Similarity=0.394  Sum_probs=48.5

Q ss_pred             hHHHHHHhC---CChHHHHHHHHHhhc-----CceeecCCceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEE
Q 025050          163 FMDLCKTMH---RQPDHVMTFLLAELG-----TSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSK  234 (258)
Q Consensus       163 f~eI~k~L~---R~pehv~kfl~~ELG-----t~gsid~~~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~k  234 (258)
                      ..+||..++   --...+++||+.-+-     +.-.||.=.      .+.-..-=+|+..  +.-|.||.|++.++...-
T Consensus        87 y~~lc~~ir~tng~eke~lry~lfgikcv~~~veydid~~~------d~~y~~yfnvlpk--kt~v~CPkCg~~~A~f~q  158 (195)
T PHA02998         87 YKDLCDMIRGTNGTEKEILRYLLFGIKCIKKGVEYDIDKIP------DVDYDDYFNVLDE--KYNTPCPNCKSKNTTPMM  158 (195)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCccchhhcc------cccchhheeccCc--ccCCCCCCCCCCceEEEE
Confidence            567887764   346778888886553     333333200      0111111122221  135899999999987643


Q ss_pred             -------cCceEEeeeccccCccc
Q 025050          235 -------ENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       235 -------e~rl~~l~C~aCGa~~~  251 (258)
                             |.-..|.+|..||.+..
T Consensus       159 lQTRSADEPmT~FYkC~~CG~~wk  182 (195)
T PHA02998        159 IQTRAADEPPLVRHACRDCKKHFK  182 (195)
T ss_pred             EeeccCCCCceEEEEcCCCCCccC
Confidence                   34588999999998754

>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]

Probab=84.48  E-value=0.76  Score=37.53  Aligned_cols=35  Identities=11%  Similarity=0.207  Sum_probs=28.1

Q ss_pred             HhccccCCCCCCCce---eEEcCceEEeeeccccCccc
Q 025050          217 NEYVICLGCKSPDTI---LSKENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       217 ~eYVlC~~C~sPdT~---L~ke~rl~~l~C~aCGa~~~  251 (258)
                      ..+-.||-|+.-.-.   +.+...+.++.|..||.+.+
T Consensus        20 ~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e   57 (104)
T COG4888          20 PKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFE   57 (104)
T ss_pred             CceEecCccCCeeeeEEEEEecCceeEEEcccCcceEE
Confidence            456799999886544   66778899999999998754

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=81.95  E-value=0.74  Score=30.46  Aligned_cols=30  Identities=30%  Similarity=0.655  Sum_probs=23.1

Q ss_pred             ccccCCCCC----CCceeEEcCceEEeeeccccCcc
Q 025050          219 YVICLGCKS----PDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       219 YVlC~~C~s----PdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      .+.||.|+.    |++.|...++  .++|..||+..
T Consensus         2 ~i~CP~C~~~f~v~~~~l~~~~~--~vrC~~C~~~f   35 (37)
T PF13719_consen    2 IITCPNCQTRFRVPDDKLPAGGR--KVRCPKCGHVF   35 (37)
T ss_pred             EEECCCCCceEEcCHHHcccCCc--EEECCCCCcEe
Confidence            478999975    5667665555  79999999864

>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]

Probab=81.80  E-value=0.95  Score=34.36  Aligned_cols=29  Identities=17%  Similarity=0.364  Sum_probs=23.7

Q ss_pred             ccccCCCCCCCceeEEcCceEEeeeccccCc
Q 025050          219 YVICLGCKSPDTILSKENRLFFLRCEKVKAH  249 (258)
Q Consensus       219 YVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~  249 (258)
                      +|.|+.|++--|.+..-  -...+|..||..
T Consensus        19 ~VkCpdC~N~q~vFsha--st~V~C~~CG~~   47 (67)
T COG2051          19 RVKCPDCGNEQVVFSHA--STVVTCLICGTT   47 (67)
T ss_pred             EEECCCCCCEEEEeccC--ceEEEecccccE
Confidence            79999999988777664  346899999975

>TIGR01159 DRP1 density-regulated protein DRP1

Probab=81.22  E-value=3.7  Score=36.24  Aligned_cols=56  Identities=14%  Similarity=0.207  Sum_probs=46.4

Q ss_pred             eeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeec----CCceEEEEeecChHHHHHHHHHH
Q 025050          156 KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLD----GQQRLVVKGRFAPKNFEGILRRY  215 (258)
Q Consensus       156 kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid----~~~rliikGrf~~k~ie~~L~~Y  215 (258)
                      .-|+|.+|...    .-++.-+.++|...+++.||+.    +++.++|+|.|....++=++.+|
T Consensus       103 ~VT~V~GLe~f----~idlk~laK~lkkkfacG~SV~k~~~~~~eI~IQGD~~~~v~e~L~~~~  162 (173)
T TIGR01159       103 FVTVIKGLETF----DIDLKKASKTFAQKFATGCSVSKSVTGKEEIVIQGDVMDDIEDYIHEKW  162 (173)
T ss_pred             eEEEEeCCcCC----CcCHHHHHHHHHHHhCCCCccccCCCCCCEEEecCCHHHHHHHHHHHHc
Confidence            56899999742    4579999999999999998772    46799999999988887777776

This protein family shows weak but suggestive similarity to translation initiation factor SUI1 and its prokaryotic homologs.

>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function

Probab=80.71  E-value=0.92  Score=32.01  Aligned_cols=32  Identities=22%  Similarity=0.485  Sum_probs=25.0

Q ss_pred             ccccCCCC----CCCceeEEcCceEEeeeccccCcc
Q 025050          219 YVICLGCK----SPDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       219 YVlC~~C~----sPdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      ||+|+.|.    -|........+..-|+|-+|...-
T Consensus         6 Fv~C~~C~~lLqlP~~~~~~~k~~~klrCGaCs~vl   41 (46)
T PF11331_consen    6 FVVCSSCFELLQLPAKFSLSKKNQQKLRCGACSEVL   41 (46)
T ss_pred             EeECccHHHHHcCCCccCCCccceeEEeCCCCceeE
Confidence            89999994    476666666668899999998653

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	258
2d74_B	148	Crystal Structure Of Translation Initiation Factor		1e-20
1nee_A	138	Structure Of Archaeal Translation Factor Aif2beta F		5e-15
2qmu_C	138	Structure Of An Archaeal Heterotrimeric Initiation		1e-14
3cw2_K	139	Crystal Structure Of The Intact Archaeal Translatio		2e-14
2nxu_A	146	Atomic Structure Of Translation Initiation Factor A		2e-14
2g2k_A	170	Nmr Structure Of An N-Terminal Fragment Of The Euka		8e-06
2e9h_A	157	Solution Structure Of The Eif-5_eif-2b Domain From		9e-06

>pdb|2D74|B Chain B, Crystal Structure Of Translation Initiation Factor Aif2betagamma Heterodimer Length = 148

Iteration: 1
 Score = 97.1 bits (240), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 53/133 (39%), Positives = 80/133 (60%), Gaps = 5/133 (3%)
Query: 116 YEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPD 175
           Y+YE+LL + +  L EN   +   + R  +    V  EG K T+  NF D+   ++R P 
Sbjct: 6   YDYEKLLEKAYQELPEN---VKHHKSRFEVPGALVTIEGNK-TIIENFKDIADALNRDPQ 61
Query: 176 HVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKE 235
           H++ FLL E+ T+G+L+G+ R+V++GRF P      L++Y+ EYVIC  C SPDT + K 
Sbjct: 62  HLLKFLLREIATAGTLEGR-RVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIKR 120
Query: 236 NRLFFLRCEKVKA 248
           +R  FL+CE   A
Sbjct: 121 DRFHFLKCEACGA 133

>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From Methanobacterium Thermoautrophicum Length = 138

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 49/138 (35%), Positives = 78/138 (56%), Gaps = 7/138 (5%)
Query: 111 GSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTM 170
           GS  D +YE+LL R  + L    PE+   +R  V +   V++    +T   NF ++   +
Sbjct: 1   GSHMD-DYEKLLERAIDQL---PPEVFETKRFEVPKAYSVIQ--GNRTFIQNFREVADAL 54
Query: 171 HRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDT 230
           +R P H++ FLL ELGT+G+L+G  R +++G+F        +  YVN++VIC  C  PDT
Sbjct: 55  NRDPQHLLKFLLRELGTAGNLEGG-RAILQGKFTHFLINERIEDYVNKFVICHECNRPDT 113
Query: 231 ILSKENRLFFLRCEKVKA 248
            + +E R+  L+CE   A
Sbjct: 114 RIIREGRISLLKCEACGA 131

>pdb|2QMU|C Chain C, Structure Of An Archaeal Heterotrimeric Initiation Factor 2 Reveals A Nucleotide State Between The Gtp And The Gdp States Length = 138

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
           EY E+L R+++ L E      G +  T   P  ++      T+  NF + C  + R+   
Sbjct: 5   EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 59
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
            M +LL EL   G++D +  LV++G+F+ +    ++ R++  YV C  CKS DTIL KE 
Sbjct: 60  CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 119
Query: 237 RLFFLRC 243
           + +++ C
Sbjct: 120 KSWYIVC 126

>pdb|3CW2|K Chain K, Crystal Structure Of The Intact Archaeal Translation Initiation Factor 2 From Sulfolobus Solfataricus . Length = 139

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
           EY E+L R+++ L E      G +  T   P  ++      T+  NF + C  + R+   
Sbjct: 6   EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 60
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
            M +LL EL   G++D +  LV++G+F+ +    ++ R++  YV C  CKS DTIL KE 
Sbjct: 61  CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 120
Query: 237 RLFFLRC 243
           + +++ C
Sbjct: 121 KSWYIVC 127

>pdb|2NXU|A Chain A, Atomic Structure Of Translation Initiation Factor Aif2 Beta-Subunit From Archaebacteria Sulfolobus Solfataricus: High Resolution Nmr In Solution Length = 146

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
           EY E+L R+++ L E      G +  T   P  ++      T+  NF + C  + R+   
Sbjct: 13  EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 67
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
            M +LL EL   G++D +  LV++G+F+ +    ++ R++  YV C  CKS DTIL KE 
Sbjct: 68  CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 127
Query: 237 RLFFLRC 243
           + +++ C
Sbjct: 128 KSWYIVC 134

>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic Initiation Factor 5 (Eif5) Length = 170

Iteration: 1
 Score = 47.4 bits (111), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
           KTV VN +D+ K ++R P +   +   ELG     D +  R +V G       + +L  +
Sbjct: 33  KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 92
Query: 216 VNEYVICLGCKSPDTIL 232
           + ++V+C  C++P+T L
Sbjct: 93  IKKFVLCPECENPETDL 109

>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human Eukaryotic Translation Initiation Factor 5 Length = 157

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
           KTV VN +D+ K ++R P +   +   ELG     D +  R +V G       + +L  +
Sbjct: 40  KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 99
Query: 216 VNEYVICLGCKSPDTIL 232
           + ++V+C  C++P+T L
Sbjct: 100 IKKFVLCPECENPETDL 116

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	258
3cw2_K	139	Translation initiation factor 2 subunit beta; AIF2	3e-54
2d74_B	148	Translation initiation factor 2 beta subunit; prot	2e-49
1nee_A	138	EIF-2-beta, probable translation initiation factor	4e-49
2e9h_A	157	EIF-5, eukaryotic translation initiation factor 5;	2e-39
2g2k_A	170	EIF-5, eukaryotic translation initiation factor 5;	5e-36
1k8b_A	52	EIF-2-beta, probable translation initiation factor	2e-23
1k81_A	36	EIF-2-beta, probable translation initiation factor	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06

>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2nxu_A 2qmu_C* 3v11_C* Length = 139

 Score =  170 bits (432), Expect = 3e-54
 Identities = 39/132 (29%), Positives = 68/132 (51%), Gaps = 5/132 (3%)

Query: 113 DRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHR 172
             + EY E+L R+++ L E        +  T   P  ++      T+  NF + C  + R
Sbjct: 2   SSEKEYVEMLDRLYSKLPEKG-----RKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRR 56

Query: 173 QPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTIL 232
           +    M +LL EL   G++D +  LV++G+F+ +    ++ R++  YV C  CKS DTIL
Sbjct: 57  EDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTIL 116

Query: 233 SKENRLFFLRCE 244
            KE + +++ C 
Sbjct: 117 KKEKKSWYIVCL 128

>2d74_B Translation initiation factor 2 beta subunit; protein complex; 2.80A {Pyrococcus furiosus} PDB: 2dcu_B* Length = 148

 Score =  158 bits (401), Expect = 2e-49
 Identities = 52/131 (39%), Positives = 78/131 (59%), Gaps = 5/131 (3%)

Query: 114 RDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQ 173
             Y+YE+LL + +  L EN       + R  +    V  EG  KT+  NF D+   ++R 
Sbjct: 4   DYYDYEKLLEKAYQELPENVK---HHKSRFEVPGALVTIEG-NKTIIENFKDIADALNRD 59

Query: 174 PDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILS 233
           P H++ FLL E+ T+G+L+G +R+V++GRF P      L++Y+ EYVIC  C SPDT + 
Sbjct: 60  PQHLLKFLLREIATAGTLEG-RRVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKII 118

Query: 234 KENRLFFLRCE 244
           K +R  FL+CE
Sbjct: 119 KRDRFHFLKCE 129

>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit; two domain protein, mixed alpha-beta structure; NMR {Methanothermobacterthermautotrophicus} SCOP: d.241.1.1 g.59.1.1 Length = 138

 Score =  157 bits (399), Expect = 4e-49
 Identities = 46/134 (34%), Positives = 74/134 (55%), Gaps = 7/134 (5%)

Query: 111 GSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTM 170
           GS  D  YE+LL R  + L    P    + +R  +     + +G  +T   NF ++   +
Sbjct: 1   GSHMDD-YEKLLERAIDQL----PPEVFETKRFEVPKAYSVIQG-NRTFIQNFREVADAL 54

Query: 171 HRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDT 230
           +R P H++ FLL ELGT+G+L+G  R +++G+F        +  YVN++VIC  C  PDT
Sbjct: 55  NRDPQHLLKFLLRELGTAGNLEGG-RAILQGKFTHFLINERIEDYVNKFVICHECNRPDT 113

Query: 231 ILSKENRLFFLRCE 244
            + +E R+  L+CE
Sbjct: 114 RIIREGRISLLKCE 127

>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4 type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 157

 Score =  133 bits (336), Expect = 2e-39
 Identities = 29/119 (24%), Positives = 50/119 (42%), Gaps = 6/119 (5%)

Query: 132 NNPELAGDRRRTVMRPPQVLREGTK---KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTS 188
            N  ++    R  M       EG     KTV VN +D+ K ++R P +   +   ELG  
Sbjct: 12  VNRSVSDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELGAQ 71

Query: 189 GSLD-GQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKE--NRLFFLRCE 244
              D    R +V G       + +L  ++ ++V+C  C++P+T L      +     C+
Sbjct: 72  TQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSCK 130

>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR {Homo sapiens} Length = 170

 Score =  125 bits (314), Expect = 5e-36
 Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 7/123 (5%)

Query: 129 LRENNPELAGD-RRRTVMRPPQVLREGTK---KTVFVNFMDLCKTMHRQPDHVMTFLLAE 184
           L  N      D   R  M       EG     KTV VN +D+ K ++R P +   +   E
Sbjct: 1   LSVNVNRSVMDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCE 60

Query: 185 LGTSGSLD-GQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKE--NRLFFL 241
           LG     D    R +V G       + +L  ++ ++V+C  C++P+T L      +    
Sbjct: 61  LGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGN 120

Query: 242 RCE 244
            C+
Sbjct: 121 SCK 123

>1k8b_A EIF-2-beta, probable translation initiation factor 2 beta subunit; N-terminal domain, AIF2 subunit beta; NMR {Methanocaldococcus jannaschii} SCOP: d.241.1.1 Length = 52

 Score = 88.6 bits (220), Expect = 2e-23
 Identities = 19/54 (35%), Positives = 35/54 (64%), Gaps = 2/54 (3%)

Query: 149 QVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGR 202
           ++L EG  +T+  NF +L K ++R  +    +LL E G++G+L+G  RL+++ R
Sbjct: 1   EILIEG-NRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEG-GRLILQRR 52

>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit; zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP: g.59.1.1 Length = 36

 Score = 51.7 bits (124), Expect = 1e-09
 Identities = 13/30 (43%), Positives = 16/30 (53%)

Query: 220 VICLGCKSPDTILSKENRLFFLRCEKVKAH 249
           VIC  C  PDT + KE R+  L+C    A 
Sbjct: 1   VICRECGKPDTKIIKEGRVHLLKCMACGAI 30

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

 Score = 45.6 bits (107), Expect = 9e-06
 Identities = 42/262 (16%), Positives = 79/262 (30%), Gaps = 88/262 (33%)

Query: 2   TDENQVDVKDEVAELAP-----FDPTKKKKKKKVVIQDPSDDSVDKLAEKTETLSVSEGL 56
           T E+Q   KD ++         FD    +   K ++   S + +D +    + +    G 
Sbjct: 11  TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSIL---SKEEIDHIIMSKDAV---SGT 64

Query: 57  ESTFTGLKKKKKKPVESSLLNDEIGDAGDDLDGHVGEDDEADGSGGPRQRYPW------- 109
              F  L  K+++ V+                  V E    +        Y +       
Sbjct: 65  LRLFWTLLSKQEEMVQK----------------FVEEVLRIN--------YKFLMSPIKT 100

Query: 110 ---EGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQV--LREGTK-----KTV 159
              + S     Y E   R++N    +N   A   +  V R      LR+        K V
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYN----DNQVFA---KYNVSRLQPYLKLRQALLELRPAKNV 153

Query: 160 FVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEY 219
            +                        G  GS  G+  + +       +++   +     +
Sbjct: 154 LI--------------D---------GVLGS--GKTWVALD---VCLSYKVQCKMDFKIF 185

Query: 220 VICLG-CKSPDTILSKENRLFF 240
            + L  C SP+T+L    +L +
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLY 207

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	258
1nee_A	138	EIF-2-beta, probable translation initiation factor	100.0
2d74_B	148	Translation initiation factor 2 beta subunit; prot	100.0
3cw2_K	139	Translation initiation factor 2 subunit beta; AIF2	100.0
2e9h_A	157	EIF-5, eukaryotic translation initiation factor 5;	100.0
2g2k_A	170	EIF-5, eukaryotic translation initiation factor 5;	100.0
1k8b_A	52	EIF-2-beta, probable translation initiation factor	99.88
1k81_A	36	EIF-2-beta, probable translation initiation factor	99.41
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	87.0
1qyp_A	57	RNA polymerase II; transcription, RPB9, Zn ribbon,	86.91
1tfi_A	50	Transcriptional elongation factor SII; transcripti	86.64
4h62_V	31	Mediator of RNA polymerase II transcription subun;	84.47
2ogh_A	108	Eukaryotic translation initiation factor EIF-1; al	81.88
1wii_A	85	Hypothetical UPF0222 protein MGC4549; domain of un	81.86
2fiy_A	309	Protein FDHE homolog; FDHE protein, structural gen	81.54

>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit; two domain protein, mixed alpha-beta structure; NMR {Methanothermobacterthermautotrophicus} SCOP: d.241.1.1 g.59.1.1

Probab=100.00  E-value=7.2e-56  Score=369.77  Aligned_cols=132  Identities=33%  Similarity=0.629  Sum_probs=126.2

Q ss_pred             CccHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCC
Q 025050          115 DYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQ  194 (258)
Q Consensus       115 ~~~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~  194 (258)
                      +|+|++||+|||++|    |+..++.+||+||+|+|+++| +||+|+||.|||++|||+|+||++||++||||+|+|| +
T Consensus         4 ~~~Y~~lL~R~~~~l----~~~~~~~~R~~mp~~~v~~eG-~kTvi~Nf~dIa~~L~R~p~hv~ky~~~ELGt~g~id-~   77 (138)
T 1nee_A            4 MDDYEKLLERAIDQL----PPEVFETKRFEVPKAYSVIQG-NRTFIQNFREVADALNRDPQHLLKFLLRELGTAGNLE-G   77 (138)
T ss_dssp             CCSSCCCCCSSSSSS----CTTSCCCCCCCCSCCCCCEET-TEEEESCHHHHHHHHCSSHHHHHHHHHHHCCSCCCCB-T
T ss_pred             ccCHHHHHHHHHHHc----ccccCCccceecCCCeEEEEC-CcEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeec-C
Confidence            688999999999999    454466789999999999999 5799999999999999999999999999999999999 8


Q ss_pred             ceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          195 QRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       195 ~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      +||||+|+|++++||++|++||++||+|++|+||||.|++++|+++++|.||||+++.
T Consensus        78 ~rlii~G~~~~~~i~~~L~~yI~~yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa~~~V  135 (138)
T 1nee_A           78 GRAILQGKFTHFLINERIEDYVNKFVICHECNRPDTRIIREGRISLLKCEACGAKAPL  135 (138)
T ss_dssp             TTEEEESSCSSSHHHHHHHHHHTHHHHHTCCSSCSSCCEEETTTTEEECSTTSCCCCS
T ss_pred             CEEEEEeeeCHHHHHHHHHHHHhhEEECCCCCCcCcEEEEcCCeEEEEccCCCCCccc
Confidence            8999999999999999999999999999999999999999999999999999999975

>2d74_B Translation initiation factor 2 beta subunit; protein complex; 2.80A {Pyrococcus furiosus} PDB: 2dcu_B*

Probab=100.00  E-value=5.9e-55  Score=367.97  Aligned_cols=132  Identities=39%  Similarity=0.751  Sum_probs=127.6

Q ss_pred             CccHHHHHHHHHHHHhhcCCCcc-cccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecC
Q 025050          115 DYEYEELLGRVFNILRENNPELA-GDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDG  193 (258)
Q Consensus       115 ~~~YeeLL~R~~~~L~~~nP~~~-~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~  193 (258)
                      .|+|++||+|||++|    |+.+ ++.+||+||+|+|+++| +||+|+||.|||++|||+|+||++||++||||+|+|| 
T Consensus         5 ~~~Y~~LL~R~~~~l----p~~~~~~~~RykmP~~~v~~eG-kKTvi~Nf~dIa~~L~R~p~hv~ky~~~ELGt~g~id-   78 (148)
T 2d74_B            5 YYDYEKLLEKAYQEL----PENVKHHKSRFEVPGALVTIEG-NKTIIENFKDIADALNRDPQHLLKFLLREIATAGTLE-   78 (148)
T ss_dssp             TTCHHHHHHTTTSSS----CHHHHSSSCCCCCCCCCEEEET-TEEEESCHHHHHHHHTCCSHHHHHHHHHHSCCCEEEE-
T ss_pred             cccHHHHHHHHHHHC----ccccCCCCCceecCCCeEEEec-CeEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeec-
Confidence            478999999999999    8876 77899999999999999 7999999999999999999999999999999999999 


Q ss_pred             CceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          194 QQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       194 ~~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      ++||||+|+|++++||++|++||++||+|++|+||||.|++++|+++++|.||||+++.
T Consensus        79 ~~rlii~G~~~~~~i~~~L~~yI~~yVlC~~C~sPdT~L~k~~r~~~l~C~ACGa~~~V  137 (148)
T 2d74_B           79 GRRVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIKRDRFHFLKCEACGAETPI  137 (148)
T ss_dssp             TTEEEESSCCCHHHHHHHHHHHHHHHSSCSSSCCTTCCCCBSSSSBCCCCSSSCCCCCC
T ss_pred             CCEEEEEeeeCHHHHHHHHHHHHHHEEECCCCCCcCcEEEEeCCEEEEEecCCCCCccc
Confidence            78999999999999999999999999999999999999999999999999999999875

>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2nxu_A 2qmu_C* 3v11_C*

Probab=100.00  E-value=1e-55  Score=369.20  Aligned_cols=133  Identities=30%  Similarity=0.607  Sum_probs=120.8

Q ss_pred             CccHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCC
Q 025050          115 DYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQ  194 (258)
Q Consensus       115 ~~~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~  194 (258)
                      +|+|++||+|||++|+    +..++.+||+||+|+|+++| +||+|+||.|||++|||+|+||++||++||||+|+||++
T Consensus         4 ~~~Y~~lL~R~~~~l~----~~~~~~~R~kmp~~~v~~eG-~kTvi~Nf~dIa~~L~R~p~hv~ky~~~ELGt~g~id~~   78 (139)
T 3cw2_K            4 EKEYVEMLDRLYSKLP----EKGRKEGTQSLPNMIILNIG-NTTIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDK   78 (139)
T ss_dssp             SGGGHHHHTTTTTSST----TSSSCSSCCSCCCCCCCCCS-SSCCCSCSSSTTTTTSSCCTTTHHHHSCCSSCCCCCSSS
T ss_pred             ccCHHHHHHHHHHHcc----cccCCccceecCCCeEEEEC-CeEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceEECCC
Confidence            6899999999999995    44466789999999999999 579999999999999999999999999999999999988


Q ss_pred             ceEEEEeecChHHHHHHHHHHHHhccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          195 QRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       195 ~rliikGrf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      +||||+|+|++++||++|++||++||+|++|+||||.|++++|+++++|.||||+++.
T Consensus        79 ~rlii~G~~~~~~i~~~L~~yI~~yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa~~~V  136 (139)
T 3cw2_K           79 GELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEKKSWYIVCLACGAQTPV  136 (139)
T ss_dssp             CCCTTTCSCCSCCSCSTTTTTSSCCSSCCSSSSSCCCSCSSCSTTTSSCCC-------
T ss_pred             CeEEEEeeeCHHHHHHHHHHHHHHeeECCCCCCcCcEEEEeCCeEEEEecCCCCCCcc
Confidence            9999999999999999999999999999999999999999999999999999999875

>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4 type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=100.00  E-value=4.3e-48  Score=328.84  Aligned_cols=123  Identities=24%  Similarity=0.422  Sum_probs=115.5

Q ss_pred             HHHHhhcCCCcccccceeecCCCeEEEeCc---eeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeec-CCceEEEEe
Q 025050          126 FNILRENNPELAGDRRRTVMRPPQVLREGT---KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLD-GQQRLVVKG  201 (258)
Q Consensus       126 ~~~L~~~nP~~~~~~~R~~mp~pqV~reG~---kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid-~~~rliikG  201 (258)
                      +++++++||.    .+||+||+|||+++|+   +||+|+||.|||++|||+|+||++||++||||+|+|| +++||||+|
T Consensus        10 ~nI~r~~~d~----~~RykmP~~~v~~eG~gnG~KTvi~Nf~dIak~L~R~p~hv~ky~~~ELGt~g~id~~~~rlii~G   85 (157)
T 2e9h_A           10 VNVNRSVSDQ----FYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNG   85 (157)
T ss_dssp             EESSTTCCCS----CCCCEEECCCEEECSSSSSCEEEETTHHHHHHHTTSCTHHHHHHHHHHHTCCEEEETTTTEEEEEB
T ss_pred             EeccCCCCCc----ccceecCCCeEEEeccCCccEEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeecCCCCEEEEEe
Confidence            5677666554    4699999999999997   7999999999999999999999999999999999999 689999999


Q ss_pred             ecChHHHHHHHHHHHHhccccCCCCCCCceeEE--cCceEEeeeccccCcccc
Q 025050          202 RFAPKNFEGILRRYVNEYVICLGCKSPDTILSK--ENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       202 rf~~k~ie~~L~~YI~eYVlC~~C~sPdT~L~k--e~rl~~l~C~aCGa~~~~  252 (258)
                      +|++++||++|++||++||+|++|+||||.|++  ++|+++++|.||||+++.
T Consensus        86 ~~~~~~i~~~L~~yI~~YVlC~~C~sPdT~L~~~~~~r~~~l~C~ACGa~~~V  138 (157)
T 2e9h_A           86 SHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYRGML  138 (157)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSCTTTCCSCCEEEEETTTTEEEEECSSSCCEEEC
T ss_pred             eeCHHHHHHHHHHHHHHeEECCCCCCCccEEEEecCCCEEEEEccCCCCCCcc
Confidence            999999999999999999999999999999998  799999999999999875

>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR {Homo sapiens}

Probab=100.00  E-value=1.1e-46  Score=323.68  Aligned_cols=117  Identities=24%  Similarity=0.418  Sum_probs=111.9

Q ss_pred             cccccceeecCCCeEEEeCc---eeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecC-CceEEEEeecChHHHHHH
Q 025050          136 LAGDRRRTVMRPPQVLREGT---KKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDG-QQRLVVKGRFAPKNFEGI  211 (258)
Q Consensus       136 ~~~~~~R~~mp~pqV~reG~---kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~-~~rliikGrf~~k~ie~~  211 (258)
                      .....+||+||+|+|.+||+   +||+|+||.|||++|||+|+||++||++||||+|+||+ ++||||+|+|++++||++
T Consensus         9 ~~D~~~RykmP~~~v~~EG~gnG~KTvi~Nf~dIak~L~R~p~hv~kyf~~ELGt~g~id~~~~rliinG~~~~~~i~~~   88 (170)
T 2g2k_A            9 VMDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDM   88 (170)
T ss_dssp             CCSCCSSCCCCCCCCEEESCTTTCEEECSSHHHHHHHHSSCCTTTHHHHHHHTTCCCEECTTTCCEEEEBCCCHHHHHHH
T ss_pred             CCCccccccCCCCeEEEeccCCccEEEEEcHHHHHHHhCCCHHHHHHHHHHHhCCceeecCCCCEEEEEeeeCHHHHHHH
Confidence            34556899999999999996   69999999999999999999999999999999999997 899999999999999999


Q ss_pred             HHHHHHhccccCCCCCCCceeEE--cCceEEeeeccccCcccc
Q 025050          212 LRRYVNEYVICLGCKSPDTILSK--ENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       212 L~~YI~eYVlC~~C~sPdT~L~k--e~rl~~l~C~aCGa~~~~  252 (258)
                      |++||++||+|++|+||||.|++  ++|+++++|.||||+++.
T Consensus        89 L~~yI~~YVlC~~C~sPdT~L~k~~~~r~~~l~C~ACGa~~~V  131 (170)
T 2g2k_A           89 LDGFIKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYRGML  131 (170)
T ss_dssp             HHHHHHHHHSCTTTSSSCEEEEEETTTTEEEEEETTTCCCCCS
T ss_pred             HHHHHHHeEECCCCCCCccEEEEecCCCEEEEEccccCCcccc
Confidence            99999999999999999999999  799999999999999875

>1k8b_A EIF-2-beta, probable translation initiation factor 2 beta subunit; N-terminal domain, AIF2 subunit beta; NMR {Methanocaldococcus jannaschii} SCOP: d.241.1.1

Probab=99.88  E-value=3.4e-23  Score=146.95  Aligned_cols=52  Identities=35%  Similarity=0.705  Sum_probs=49.7

Q ss_pred             eEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEee
Q 025050          149 QVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGR  202 (258)
Q Consensus       149 qV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGr  202 (258)
                      +|.++| +||+|+||.|||++|||+|+||++||++||||+|++| ++||||+|+
T Consensus         1 ~v~~eG-~kTvi~Nf~~Ia~~L~R~p~hv~ky~~~ELGt~g~id-~~rlii~G~   52 (52)
T 1k8b_A            1 EILIEG-NRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLE-GGRLILQRR   52 (52)
T ss_dssp             CEEEET-TEEEECCHHHHHHHHHTCHHHHHHHHHHHHSSEEEEE-TTEEEEECC
T ss_pred             CcEEEc-CeEEEECHHHHHHHHCCCHHHHHHHHHHHhCCCeeec-CCEEEEeCC
Confidence            589999 6799999999999999999999999999999999999 789999996

>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit; zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP: g.59.1.1

Probab=99.41  E-value=6.5e-14  Score=92.23  Aligned_cols=34  Identities=38%  Similarity=0.632  Sum_probs=32.2

Q ss_pred             cccCCCCCCCceeEEcCceEEeeeccccCccccc
Q 025050          220 VICLGCKSPDTILSKENRLFFLRCEKVKAHIQSY  253 (258)
Q Consensus       220 VlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~~  253 (258)
                      |+|++|+||||.|++++|+++++|+|||++++.-
T Consensus         1 VlC~~C~~peT~l~~~~~~~~l~C~aCG~~~~v~   34 (36)
T 1k81_A            1 VICRECGKPDTKIIKEGRVHLLKCMACGAIRPIR   34 (36)
T ss_dssp             CCCSSSCSCEEEEEEETTEEEEEEETTTEEEEEC
T ss_pred             CCCcCCCCCCcEEEEeCCcEEEEhhcCCCccccc
Confidence            8999999999999999999999999999998753

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=87.00  E-value=0.36  Score=32.41  Aligned_cols=30  Identities=23%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             cccCCCCCCCceeEEcCceEEeeeccccCccc
Q 025050          220 VICLGCKSPDTILSKENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       220 VlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~  251 (258)
                      +.||.|++++  |+-+..--.+.|..||..-.
T Consensus         6 ~~CP~C~~~~--l~~d~~~gelvC~~CG~v~~   35 (50)
T 1pft_A            6 KVCPACESAE--LIYDPERGEIVCAKCGYVIE   35 (50)
T ss_dssp             CSCTTTSCCC--EEEETTTTEEEESSSCCBCC
T ss_pred             EeCcCCCCcc--eEEcCCCCeEECcccCCccc
Confidence            5799999954  54442222589999998543

>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1

Probab=86.91  E-value=0.58  Score=32.34  Aligned_cols=33  Identities=18%  Similarity=0.407  Sum_probs=25.1

Q ss_pred             ccccCCCCCCCceeEE-------cCceEEeeeccccCccc
Q 025050          219 YVICLGCKSPDTILSK-------ENRLFFLRCEKVKAHIQ  251 (258)
Q Consensus       219 YVlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~~~  251 (258)
                      .|.||.|+..+.....       +.-..|..|..||.+-.
T Consensus        15 ~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~   54 (57)
T 1qyp_A           15 KITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWR   54 (57)
T ss_dssp             ECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEE
T ss_pred             EeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEec
Confidence            5899999997766543       24577999999998743

>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=86.64  E-value=0.68  Score=31.78  Aligned_cols=31  Identities=19%  Similarity=0.441  Sum_probs=25.2

Q ss_pred             ccccCCCCCCCceeEE-------cCceEEeeeccccCc
Q 025050          219 YVICLGCKSPDTILSK-------ENRLFFLRCEKVKAH  249 (258)
Q Consensus       219 YVlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~  249 (258)
                      -+.||.|++.+..+..       +.-..|..|..||.+
T Consensus         9 ~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~   46 (50)
T 1tfi_A            9 LFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNR   46 (50)
T ss_dssp             CSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCE
T ss_pred             ccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCe
Confidence            3789999999987764       345778999999986

>4h62_V Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}

Probab=84.47  E-value=0.52  Score=29.23  Aligned_cols=21  Identities=29%  Similarity=0.563  Sum_probs=17.2

Q ss_pred             eecChHHHHHHHHHHHHhccc
Q 025050          201 GRFAPKNFEGILRRYVNEYVI  221 (258)
Q Consensus       201 Grf~~k~ie~~L~~YI~eYVl  221 (258)
                      .||..+||+.+|++-|+.||.
T Consensus         7 trfdekqieelldncietfva   27 (31)
T 4h62_V            7 TRFDEKQIEELLDNCIETFVA   27 (31)
T ss_dssp             ---CHHHHHHHHHHHHHHHHT
T ss_pred             ccccHHHHHHHHHHHHHHHHh
Confidence            479999999999999999985

>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein; NMR {Saccharomyces cerevisiae}

Probab=81.88  E-value=2.8  Score=32.88  Aligned_cols=57  Identities=11%  Similarity=0.165  Sum_probs=46.5

Q ss_pred             ceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCC----ceEEEEeecChHHHHHHHHHHH
Q 025050          155 TKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQ----QRLVVKGRFAPKNFEGILRRYV  216 (258)
Q Consensus       155 ~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~----~rliikGrf~~k~ie~~L~~YI  216 (258)
                      +.-|+|.+|..     .-+++-+.+.|...+|+.|++-++    ..+.|+|.+.....+-++.+++
T Consensus        37 K~VT~V~Gl~~-----~~dlk~lak~lKkk~acggsV~~~~~~g~~I~iQGD~r~~v~~~L~~~g~   97 (108)
T 2ogh_A           37 KTLTTVQGVPE-----EYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFMISQLG   97 (108)
T ss_dssp             CCEEEEECCCT-----TSCHHHHHHHHHHHHCCCEEEECCTTSSCEEEEESSCHHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCc-----chhHHHHHHHHHHHhcCceEEecCCCCceEEEEcCCHHHHHHHHHHHcCC
Confidence            46788999962     448999999999999999999532    3899999999887777777654

>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4

Probab=81.86  E-value=1.1  Score=34.25  Aligned_cols=35  Identities=14%  Similarity=0.215  Sum_probs=28.5

Q ss_pred             hccccCCCCCCCceeEE---cCceEEeeeccccCcccc
Q 025050          218 EYVICLGCKSPDTILSK---ENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       218 eYVlC~~C~sPdT~L~k---e~rl~~l~C~aCGa~~~~  252 (258)
                      .+-.||-|+..++.-++   ..++-.+.|..||.+.+.
T Consensus        22 t~F~CPfCnh~~sV~vkidk~~~~g~l~C~~Cg~~~~~   59 (85)
T 1wii_A           22 TQFTCPFCNHEKSCDVKMDRARNTGVISCTVCLEEFQT   59 (85)
T ss_dssp             SCCCCTTTCCSSCEEEEEETTTTEEEEEESSSCCEEEE
T ss_pred             CeEcCCCCCCCCeEEEEEEccCCEEEEEcccCCCeEEe
Confidence            46689999999877665   457999999999987653

>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1

Probab=81.54  E-value=0.81  Score=42.09  Aligned_cols=33  Identities=24%  Similarity=0.519  Sum_probs=24.2

Q ss_pred             hccccCCCCCCC-ceeEE----cCceEEeeeccccCcc
Q 025050          218 EYVICLGCKSPD-TILSK----ENRLFFLRCEKVKAHI  250 (258)
Q Consensus       218 eYVlC~~C~sPd-T~L~k----e~rl~~l~C~aCGa~~  250 (258)
                      ..-.||.|+|+= ..+++    .++.-+++|.-||+.-
T Consensus       181 ~~~~CPvCGs~P~~s~l~~~g~~~G~R~l~Cs~C~t~W  218 (309)
T 2fiy_A          181 SRTLCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEW  218 (309)
T ss_dssp             TCSSCTTTCCCEEEEEEEC----CCEEEEEETTTCCEE
T ss_pred             cCCCCCCCCCcCceeEEeecCCCCCcEEEEeCCCCCEE
Confidence            357899999975 44555    3677799999998753

---

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	258
d1neea1	98	d.241.1.1 (A:1-98) Translation initiation factor 2	9e-36
d1k8ba_	52	d.241.1.1 (A:) Translation initiation factor 2 bet	5e-22
d1neea2	37	g.59.1.1 (A:99-135) Zinc-binding domain of transla	3e-11
d1k81a_	36	g.59.1.1 (A:) Zinc-binding domain of translation i	8e-10

>d1neea1 d.241.1.1 (A:1-98) Translation initiation factor 2 beta, aIF2beta, N-terminal domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
domain: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score =  120 bits (304), Expect = 9e-36
 Identities = 31/103 (30%), Positives = 55/103 (53%), Gaps = 6/103 (5%)

Query: 116 YEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPD 175
            +YE+LL R  + L    P    + +R  +     + +G  +T   NF ++   ++R P 
Sbjct: 2   DDYEKLLERAIDQL----PPEVFETKRFEVPKAYSVIQG-NRTFIQNFREVADALNRDPQ 56

Query: 176 HVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNE 218
           H++ FLL ELGT+G+L+G  R +++G+F        +  YVN+
Sbjct: 57  HLLKFLLRELGTAGNLEG-GRAILQGKFTHFLINERIEDYVNK 98

>d1k8ba_ d.241.1.1 (A:) Translation initiation factor 2 beta, aIF2beta, N-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 52

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
domain: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 83.9 bits (208), Expect = 5e-22
 Identities = 19/54 (35%), Positives = 35/54 (64%), Gaps = 2/54 (3%)

Query: 149 QVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGR 202
           ++L EG  +T+  NF +L K ++R  +    +LL E G++G+L+G  RL+++ R
Sbjct: 1   EILIEG-NRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEG-GRLILQRR 52

>d1neea2 g.59.1.1 (A:99-135) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 37

class: Small proteins
fold: Zinc-binding domain of translation initiation factor 2 beta
superfamily: Zinc-binding domain of translation initiation factor 2 beta
family: Zinc-binding domain of translation initiation factor 2 beta
domain: Zinc-binding domain of translation initiation factor 2 beta
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 54.7 bits (132), Expect = 3e-11
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 219 YVICLGCKSPDTILSKENRLFFLRCEKVKAH 249
           +VIC  C  PDT + +E R+  L+CE   A 
Sbjct: 1   FVICHECNRPDTRIIREGRISLLKCEACGAK 31

>d1k81a_ g.59.1.1 (A:) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 36

class: Small proteins
fold: Zinc-binding domain of translation initiation factor 2 beta
superfamily: Zinc-binding domain of translation initiation factor 2 beta
family: Zinc-binding domain of translation initiation factor 2 beta
domain: Zinc-binding domain of translation initiation factor 2 beta
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 50.8 bits (122), Expect = 8e-10
 Identities = 13/30 (43%), Positives = 16/30 (53%)

Query: 220 VICLGCKSPDTILSKENRLFFLRCEKVKAH 249
           VIC  C  PDT + KE R+  L+C    A 
Sbjct: 1   VICRECGKPDTKIIKEGRVHLLKCMACGAI 30

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	258
d1neea1	98	Translation initiation factor 2 beta, aIF2beta, N-	100.0
d1k8ba_	52	Translation initiation factor 2 beta, aIF2beta, N-	99.87
d1neea2	37	Zinc-binding domain of translation initiation fact	99.6
d1k81a_	36	Zinc-binding domain of translation initiation fact	99.55
d1qypa_	57	RBP9 subunit of RNA polymerase II {Archaeon Thermo	91.18
d1dl6a_	58	Transcription initiation factor TFIIB, N-terminal	85.99
d1tfia_	50	Transcriptional factor SII, C-terminal domain {Hum	85.48
d1pfta_	50	Transcription initiation factor TFIIB, N-terminal	84.42
d1twfi2	72	RBP9 subunit of RNA polymerase II {Baker's yeast (	83.76
d2vuti1	42	Erythroid transcription factor GATA-1 {Emericella	81.32
d1y0ja1	39	Erythroid transcription factor GATA-1 {Mouse (Mus	80.82

>d1neea1 d.241.1.1 (A:1-98) Translation initiation factor 2 beta, aIF2beta, N-terminal domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
domain: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=100.00  E-value=3.3e-36  Score=236.11  Aligned_cols=96  Identities=32%  Similarity=0.632  Sum_probs=90.9

Q ss_pred             cHHHHHHHHHHHHhhcCCCcccccceeecCCCeEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCce
Q 025050          117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQR  196 (258)
Q Consensus       117 ~YeeLL~R~~~~L~~~nP~~~~~~~R~~mp~pqV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~r  196 (258)
                      +|++||+|||+.|    |+...+..||+||+|+|.++| +||+|.||.|||++|||+|+||++||++||||+|++++ ++
T Consensus         3 ~Y~~LL~R~~~~l----~~~~~~~~R~~mP~~~v~~eG-kkTii~Nf~~Ia~~L~R~p~hl~kfl~~ELgt~g~i~~-~~   76 (98)
T d1neea1           3 DYEKLLERAIDQL----PPEVFETKRFEVPKAYSVIQG-NRTFIQNFREVADALNRDPQHLLKFLLRELGTAGNLEG-GR   76 (98)
T ss_dssp             SSCCCCCSSSSSS----CTTSCCCCCCCCSCCCCCEET-TEEEESCHHHHHHHHCSSHHHHHHHHHHHCCSCCCCBT-TT
T ss_pred             cHHHHHHHHHHHC----CcccCCCcceecCCceEEEec-ceEEEechHHHHHHHCCCHHHHHHHHHHHhCCceEEeC-CE
Confidence            6999999999999    666666779999999999999 89999999999999999999999999999999999985 69


Q ss_pred             EEEEeecChHHHHHHHHHHHHh
Q 025050          197 LVVKGRFAPKNFEGILRRYVNE  218 (258)
Q Consensus       197 liikGrf~~k~ie~~L~~YI~e  218 (258)
                      |||+|+|++++|+++|++||++
T Consensus        77 lii~G~~~~~~i~~~l~~yI~e   98 (98)
T d1neea1          77 AILQGKFTHFLINERIEDYVNK   98 (98)
T ss_dssp             EEEESSCSSSHHHHHHHHHHTH
T ss_pred             EEEEeeeCHHHHHHHHHHHhcC
Confidence            9999999999999999999975

>d1k8ba_ d.241.1.1 (A:) Translation initiation factor 2 beta, aIF2beta, N-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
domain: Translation initiation factor 2 beta, aIF2beta, N-terminal domain
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.87  E-value=3e-23  Score=145.48  Aligned_cols=52  Identities=37%  Similarity=0.754  Sum_probs=49.9

Q ss_pred             eEEEeCceeEEEEehHHHHHHhCCChHHHHHHHHHhhcCceeecCCceEEEEee
Q 025050          149 QVLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGR  202 (258)
Q Consensus       149 qV~reG~kKTvi~Nf~eI~k~L~R~pehv~kfl~~ELGt~gsid~~~rliikGr  202 (258)
                      +|.+|| +||+|+||.+||++|||+|+||++||++||||+|++++ +||||+||
T Consensus         1 ~v~~EG-kkTvi~Nf~eI~~~L~R~p~hv~kfl~~ELgt~g~~~~-~rlii~Gr   52 (52)
T d1k8ba_           1 EILIEG-NRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEG-GRLILQRR   52 (52)
T ss_dssp             CEEEET-TEEEECCHHHHHHHHHTCHHHHHHHHHHHHSSEEEEET-TEEEEECC
T ss_pred             CceEec-ceEeeecHHHHHHHhCCCHHHHHHHHHHHhCCceeeeC-CEEEEeCC
Confidence            589999 89999999999999999999999999999999999985 69999997

>d1neea2 g.59.1.1 (A:99-135) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Small proteins
fold: Zinc-binding domain of translation initiation factor 2 beta
superfamily: Zinc-binding domain of translation initiation factor 2 beta
family: Zinc-binding domain of translation initiation factor 2 beta
domain: Zinc-binding domain of translation initiation factor 2 beta
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.60  E-value=5.5e-17  Score=106.14  Aligned_cols=34  Identities=38%  Similarity=0.788  Sum_probs=32.7

Q ss_pred             ccccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          219 YVICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       219 YVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      ||+|++|+||||.|+|++|++||+|+||||+|+.
T Consensus         1 YV~C~~C~spDT~l~ke~R~~~l~C~aCGa~r~V   34 (37)
T d1neea2           1 FVICHECNRPDTRIIREGRISLLKCEACGAKAPL   34 (37)
T ss_dssp             HHHHTCCSSCSSCCEEETTTTEEECSTTSCCCCS
T ss_pred             CeECCCCCCCCCEEEEcCCEEEEEeccCCCCccc
Confidence            8999999999999999999999999999999874

>d1k81a_ g.59.1.1 (A:) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Small proteins
fold: Zinc-binding domain of translation initiation factor 2 beta
superfamily: Zinc-binding domain of translation initiation factor 2 beta
family: Zinc-binding domain of translation initiation factor 2 beta
domain: Zinc-binding domain of translation initiation factor 2 beta
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.55  E-value=6.8e-16  Score=100.34  Aligned_cols=33  Identities=39%  Similarity=0.669  Sum_probs=31.5

Q ss_pred             cccCCCCCCCceeEEcCceEEeeeccccCcccc
Q 025050          220 VICLGCKSPDTILSKENRLFFLRCEKVKAHIQS  252 (258)
Q Consensus       220 VlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~~~  252 (258)
                      |+|++|+||||.|+|++|++||+|+||||+|+-
T Consensus         1 V~C~~C~spDT~l~ke~R~~~l~C~aCGa~r~V   33 (36)
T d1k81a_           1 VICRECGKPDTKIIKEGRVHLLKCMACGAIRPI   33 (36)
T ss_dssp             CCCSSSCSCEEEEEEETTEEEEEEETTTEEEEE
T ss_pred             CCCCCCCCCCCEEEEcCCEEEEEeccCCCCCcc
Confidence            899999999999999999999999999999863

>d1qypa_ g.41.3.1 (A:) RBP9 subunit of RNA polymerase II {Archaeon Thermococcus celer [TaxId: 2264]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: RBP9 subunit of RNA polymerase II
species: Archaeon Thermococcus celer [TaxId: 2264]

Probab=91.18  E-value=0.087  Score=35.78  Aligned_cols=34  Identities=24%  Similarity=0.513  Sum_probs=28.3

Q ss_pred             cccCCCCCCCceeEE-------cCceEEeeeccccCccccc
Q 025050          220 VICLGCKSPDTILSK-------ENRLFFLRCEKVKAHIQSY  253 (258)
Q Consensus       220 VlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~~~~~  253 (258)
                      +.||.|++-++...-       +.-.+|..|..||.+-.-|
T Consensus        16 ~~CpkC~~~~a~~~~~QtRsaDE~~T~fy~C~~Cg~~wrey   56 (57)
T d1qypa_          16 ITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSY   56 (57)
T ss_dssp             CCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEECC
T ss_pred             CCCCCCCCCceEEEEeecccccCCCeEEEEeCCCCCcceeC
Confidence            689999999988763       3468899999999987766

>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.99  E-value=0.12  Score=35.20  Aligned_cols=30  Identities=17%  Similarity=0.184  Sum_probs=20.8

Q ss_pred             ccccCCCCCCCceeEEcCceEEeeeccccCcc
Q 025050          219 YVICLGCKSPDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       219 YVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      -+.||.|+|++  |+-+..-=.+.|..||..-
T Consensus        11 ~~~Cp~Cgs~~--ii~D~~~Ge~vC~~CG~Vl   40 (58)
T d1dl6a_          11 RVTCPNHPDAI--LVEDYRAGDMICPECGLVV   40 (58)
T ss_dssp             CCSBTTBSSSC--CEECSSSCCEECTTTCCEE
T ss_pred             ccCCCCCCCCC--EEEECCCCcEecccCCCEe
Confidence            47899999986  4433222258899999753

>d1tfia_ g.41.3.1 (A:) Transcriptional factor SII, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcriptional factor SII, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.48  E-value=0.4  Score=31.64  Aligned_cols=31  Identities=19%  Similarity=0.422  Sum_probs=25.1

Q ss_pred             cccCCCCCCCceeEE-------cCceEEeeeccccCcc
Q 025050          220 VICLGCKSPDTILSK-------ENRLFFLRCEKVKAHI  250 (258)
Q Consensus       220 VlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~~  250 (258)
                      ..|+.|++.+....-       |.-..|..|..||.+-
T Consensus        10 ~~C~kC~~~~~~~~~~QtRSADEp~T~F~~C~~Cg~~W   47 (50)
T d1tfia_          10 FTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRW   47 (50)
T ss_dssp             SCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEE
T ss_pred             EECCCCCCCccEEEEEEccCCCCCceEEEEccccCCee
Confidence            589999999986653       3468899999999863

>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=84.42  E-value=0.19  Score=32.99  Aligned_cols=32  Identities=25%  Similarity=0.392  Sum_probs=21.9

Q ss_pred             HhccccCCCCCCCceeEEcCceEEeeeccccCcc
Q 025050          217 NEYVICLGCKSPDTILSKENRLFFLRCEKVKAHI  250 (258)
Q Consensus       217 ~eYVlC~~C~sPdT~L~ke~rl~~l~C~aCGa~~  250 (258)
                      ++--+||.|+|.+  |+.+..-=.+.|..||..-
T Consensus         3 ~~~~~Cp~Cgs~~--iv~D~~~Ge~vC~~CG~Vi   34 (50)
T d1pfta_           3 NKQKVCPACESAE--LIYDPERGEIVCAKCGYVI   34 (50)
T ss_dssp             SSCCSCTTTSCCC--EEEETTTTEEEESSSCCBC
T ss_pred             cccccCcCCCCCc--EEEECCCCeEecccCCcEe
Confidence            3456899999865  5554322278999999743

>d1twfi2 g.41.3.1 (I:50-121) RBP9 subunit of RNA polymerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: RBP9 subunit of RNA polymerase II
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.76  E-value=0.43  Score=33.62  Aligned_cols=31  Identities=16%  Similarity=0.397  Sum_probs=25.2

Q ss_pred             ccccCCCCCCCceeEE-------cCceEEeeeccccCc
Q 025050          219 YVICLGCKSPDTILSK-------ENRLFFLRCEKVKAH  249 (258)
Q Consensus       219 YVlC~~C~sPdT~L~k-------e~rl~~l~C~aCGa~  249 (258)
                      ...|+.|++.+..+.-       +.-.+|..|..||.+
T Consensus        23 ~~~CpkCg~~~a~~~q~QtRsaDE~mT~Fy~C~~C~h~   60 (72)
T d1twfi2          23 DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHI   60 (72)
T ss_dssp             CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCE
T ss_pred             CCCCCCCCCCeEEEEEeecCccCCCceEEEEcCCCCCC
Confidence            3689999999988764       345789999999985

>d2vuti1 g.39.1.1 (I:671-712) Erythroid transcription factor GATA-1 {Emericella nidulans [TaxId: 162425]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: Erythroid transcription factor GATA-1
domain: Erythroid transcription factor GATA-1
species: Emericella nidulans [TaxId: 162425]

Probab=81.32  E-value=0.14  Score=33.00  Aligned_cols=28  Identities=21%  Similarity=0.248  Sum_probs=21.5

Q ss_pred             ccCCCCCCCceeEEcCceEEeeeccccC
Q 025050          221 ICLGCKSPDTILSKENRLFFLRCEKVKA  248 (258)
Q Consensus       221 lC~~C~sPdT~L~ke~rl~~l~C~aCGa  248 (258)
                      .|..|+.-+|-+-+.+.-=-.-|+|||-
T Consensus         2 ~C~nC~tt~Tp~WRr~~~G~~lCNACGl   29 (42)
T d2vuti1           2 TCTNCFTQTTPLWRRNPEGQPLCNACGL   29 (42)
T ss_dssp             CCSSSCCCCCSCCEECTTSCEECHHHHH
T ss_pred             cCCCCCCCCCccceeCCCCCCchhhhhH
Confidence            5999999999998854211357999995

>d1y0ja1 g.39.1.1 (A:200-238) Erythroid transcription factor GATA-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: Erythroid transcription factor GATA-1
domain: Erythroid transcription factor GATA-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.82  E-value=0.18  Score=31.94  Aligned_cols=29  Identities=21%  Similarity=0.367  Sum_probs=22.0

Q ss_pred             cccCCCCCCCceeEEcCceEEeeeccccC
Q 025050          220 VICLGCKSPDTILSKENRLFFLRCEKVKA  248 (258)
Q Consensus       220 VlC~~C~sPdT~L~ke~rl~~l~C~aCGa  248 (258)
                      ..|..|+.-+|-+-+.+.-=-.-|+|||-
T Consensus         3 r~C~~Cgtt~Tp~WR~gp~G~~LCNACGl   31 (39)
T d1y0ja1           3 RECVNCGATATPLWRRDRTGHYLCNACGL   31 (39)
T ss_dssp             CCCSSSCCCCCSCCEECTTSCEECSSHHH
T ss_pred             CCCCCCCCCCCcccccCCCCCEeeHHhHH
Confidence            46999999999998853211258999994