Citrus Sinensis ID: 024576

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-----
Protein Sequence
MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNPVDLDIAGDADGSGTPSDDPSQGTIRSSPKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDDEFYDSDSSDVVPLGSLPVDHIAERLQRK
Secondary Structure (PSIPRED)
ccccccccccccHHHcccccccHHHHHHHHHccccccccEEEEcccEEHHHHHHHHHHHccccEEEEEccccccHHHHHHHHHHHHcccEEEEEEcccEEEEEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHcccccccHHHHHHHHHccccccHHHHHHccccEEEccHHHHHHHccccEEEEEcccccHHHHHHHHHHHHHcccEEEEEEcccEEEEEEccccccccccccccccccccccccccccccccccccccHHHcccHHHHHHHHHHHHccHEEEEHcccccHHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccccccccccccccccHHHHHcccccccccccccHHHHHHHHccc
Coil and Loop (DISEMBL)
mlwkpaapvypkliqeapegltkHEADELRRKgksllpicklakngVYLTLVRDVRnafegsslvkvnckgmhasdyKKLGAKLKELvpcvllsfddeQILMWRGkdwksmypeppsfsnpvdldiagdadgsgtpsddpsqgtirsspKMISLWKRAIESTKALVLDeinlgpddLLKKVEEFEGISQAAEHSYPALvlsredgasssmaeyedgsqsenydedefypeddfndddefydsdssdvvplgslpvdHIAERLQRK
Flexible Loop (DISEMBL)
mlwkpaapvypkliqeapegltkhEADELRrkgksllpicklakNGVYLTLVRDVRNAFegsslvkvnckgMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNPVDLDIAGDADGsgtpsddpsqgtirsspKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISqaaehsypaLVLSREDGASSSMAEyedgsqsenydeDEFYPEDDFNDDDEFYDSDssdvvplgslpvdhiaerlqrk
Low Complexity Region (SEG)
MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNPVDLDIAGDADGSGTPSDDPSQGTIRSSPKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSenydedefypeddfndddefydsdssdVVPLGSLPVDHIAERLQRK
Disordered region (IsUnstruct)
**********************************SLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSM****************************************ISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGI******************************************************************************
Disordered Region (DISOPRED)
*LWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWK*********************************************WKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSY********************************************YDSDSSDVVPLGSLPVDHIAERL***
Disordered Region (DISEMBL)
MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNPVDLDIAGDA***************RSSPKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSYPALVLSRE********************EDEFYPEDDFNDDDEFYDSDSSDVVPLGSLPVDHIAERLQRK
Disordered Region (DISPRO)
MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKS**********************************IRSSPKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSYPALVLSR****************************DDFNDDDEFYDSDSSDVVPLGSLPVDHIAERLQ**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNPVDLDIAGDADGSGTPSDDPSQGTIRSSPKMISLWKRAIESTKALVLDEINLGPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDDEFYDSDSSDVVPLGSLPVDHIAERLQRK
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	265	2.2.26 [Sep-21-2011]
Q9LDA9	564	CRS2-associated factor 2,	yes	no	0.973	0.457	0.598	4e-79
Q84N48	611	CRS2-associated factor 2,	N/A	no	0.988	0.428	0.541	1e-72
Q657G7	607	CRS2-associated factor 2,	yes	no	0.984	0.429	0.521	3e-70
Q9SL79	701	CRS2-associated factor 1,	no	no	0.433	0.164	0.634	4e-43
Q5VMQ5	701	CRS2-associated factor 1,	no	no	0.411	0.155	0.637	3e-40
Q84N49	674	CRS2-associated factor 1,	N/A	no	0.418	0.164	0.628	2e-38
Q6Z4U2	428	CRS2-associated factor 1,	no	no	0.407	0.252	0.555	4e-30
Q8VYD9	405	CRS2-associated factor 1,	no	no	0.358	0.234	0.532	1e-29
Q0J7J7	366	CRS2-associated factor 2,	no	no	0.4	0.289	0.509	9e-27
Q9FFU1	358	CRS2-associated factor 2,	no	no	0.392	0.290	0.462	3e-24

>sp|Q9LDA9|CAF2P_ARATH CRS2-associated factor 2, chloroplastic OS=Arabidopsis thaliana GN=At1g23400 PE=2 SV=1

 Score =  294 bits (753), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 161/269 (59%), Positives = 202/269 (75%), Gaps = 11/269 (4%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQE PEGLTK EA E R KGKSL PICKL+KNGVY++LV+DVR+AFE
Sbjct: 301 MLWKPAAPVYPKLIQEVPEGLTKEEAHEFRVKGKSLRPICKLSKNGVYVSLVKDVRDAFE 360

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
            SSLVKV+C G+  SDYKK+GAKLKELVPCVLLSFDDEQILMWRG++WKS + + P   +
Sbjct: 361 LSSLVKVDCPGLEPSDYKKIGAKLKELVPCVLLSFDDEQILMWRGREWKSRFVDNPLIPS 420

Query: 121 PVDLDIAGDADGSGTPSDDPSQG---TIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
             + +   + D S  PS++ +     T  SSPKMISLW+RA+ES+KA++L+E++LGPDDL
Sbjct: 421 LSETNTTNELDPSDKPSEEQTVANPSTTISSPKMISLWQRALESSKAVILEELDLGPDDL 480

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           LKKVEE EG S AAEH+Y A+VLS  DGA+    + +D S+       E+Y + D + DD
Sbjct: 481 LKKVEELEGTSLAAEHTYTAMVLSNTDGAAEDYVDEKDRSE-------EYYSDIDDDFDD 533

Query: 238 EFYDSDSSDVV-PLGSLPVDHIAERLQRK 265
           E  D +S D V P+GSLPVD I  +L+ +
Sbjct: 534 ECSDDESLDPVGPVGSLPVDKIVRKLRER 562

Essential protein required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.
Arabidopsis thaliana (taxid: 3702)

>sp|Q84N48|CAF2P_MAIZE CRS2-associated factor 2, chloroplastic OS=Zea mays GN=CAF2 PE=1 SV=1

 Score =  273 bits (698), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 151/279 (54%), Positives = 193/279 (69%), Gaps = 17/279 (6%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPA PVYPKLI+EAP+G TK EADE+RRKG+ LLPICKLAKNG+Y+TLV+DVR+AFE
Sbjct: 332 MLWKPATPVYPKLIKEAPDGFTKEEADEMRRKGRDLLPICKLAKNGIYITLVKDVRDAFE 391

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++C+G++ SDYKK+GAKL++LVPCVLLSFDDEQILM RGK+WKS Y +P +   
Sbjct: 392 GSDLVKIDCEGLNPSDYKKIGAKLRDLVPCVLLSFDDEQILMHRGKEWKSRYSKPLTLIP 451

Query: 121 PV---DLDIAGDADGSGTPSDDPSQGTIRS--SPKMISLWKRAIESTKALVLDEI---NL 172
            V   +L +    + S   SD  +Q  IR    PKM  LWK A++S+ AL+LD+    NL
Sbjct: 452 KVPKNNLAMTSVMNSSDEVSDANTQVAIREVLRPKMFKLWKSAVDSSLALLLDDAEANNL 511

Query: 173 GPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSM-AEY---EDGSQSENYDEDEFY 228
            PD LL  VEEF   SQA EHS+PAL+++  D ++ S+ AEY   E  +     +E +  
Sbjct: 512 TPDSLLTLVEEFSVTSQAVEHSFPALLVTNGDASTDSLSAEYMNDEPETSVAGNEEGQLE 571

Query: 229 PEDDFNDDDEFYDSDSSD----VVPLGSLPVDHIAERLQ 263
              D  DD+ F D D  +     VPLGSLP+D + ERL 
Sbjct: 572 QSPDLRDDEHF-DVDMFERLESSVPLGSLPIDSMIERLN 609

Required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.

Zea mays (taxid: 4577)

>sp|Q657G7|CAF2P_ORYSJ CRS2-associated factor 2, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0323300 PE=2 SV=1

 Score =  265 bits (676), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 146/280 (52%), Positives = 194/280 (69%), Gaps = 19/280 (6%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPA PVYPKLIQEAPEGLTK EADE+RR+GK LLPICKLAKNG+Y+ LVRDVR+AFE
Sbjct: 328 MLWKPATPVYPKLIQEAPEGLTKEEADEMRRRGKDLLPICKLAKNGIYIYLVRDVRDAFE 387

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++C+G++ SDYKK+GAKL++LVPCVLLSFD+EQILM+RGK+WKS YP+P +   
Sbjct: 388 GSDLVKIDCEGLNPSDYKKIGAKLRDLVPCVLLSFDNEQILMFRGKEWKSRYPKPLTLIP 447

Query: 121 PV---DLDIAGDADGSGTPSDDPSQGTIRS--SPKMISLWKRAIESTKALVLDEIN---L 172
            +   ++ ++ D   S   +DD  +  +R    PKM  LW  AIES+ AL+LD+     L
Sbjct: 448 KIRKNNVPMSSDESSSDEATDDDDRLAVREVLRPKMFELWTNAIESSVALMLDDAEVDAL 507

Query: 173 GPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSM-AEY-----EDGS---QSENYD 223
            PD LL +VE+F   SQ  EHS+PA++++ ++     + AEY     E G+   Q   + 
Sbjct: 508 TPDSLLTRVEDFSVTSQVVEHSFPAVLVANDESNPDVLNAEYTEDEPETGTLEPQQHEFT 567

Query: 224 EDEFYPEDDFNDDDEFYDSDSSDVVPLGSLPVDHIAERLQ 263
           E     EDD  +DD     +SS  VPLG+LP+D + ++L 
Sbjct: 568 ESSDVAEDDHFEDDMLKRLESS--VPLGALPIDAVVKQLN 605

Required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9SL79|CAF1P_ARATH CRS2-associated factor 1, chloroplastic OS=Arabidopsis thaliana GN=At2g20020 PE=1 SV=2

 Score =  175 bits (443), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 73/115 (63%), Positives = 96/115 (83%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKP APVYP+LIQ+ PEGLT+ EA  +RRKG+ L+PICKL KNGVY  LV++V+ AFE
Sbjct: 341 MLWKPVAPVYPRLIQQVPEGLTRQEATNMRRKGRELMPICKLGKNGVYCDLVKNVKEAFE 400

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEP 115
              LV+++C+GM  SD++K+GAKLK+LVPCVL+SF++EQIL+WRG++WKS    P
Sbjct: 401 VCELVRIDCQGMKGSDFRKIGAKLKDLVPCVLVSFENEQILIWRGREWKSSLTTP 455

Required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5VMQ5|CAF1P_ORYSJ CRS2-associated factor 1, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0495900 PE=2 SV=1

 Score =  165 bits (418), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 72/113 (63%), Positives = 92/113 (81%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYP+L+++ P+GLT  EA+++R++G+ L PICKL KNGVYL LV+ VR AFE
Sbjct: 283 MLWKPAAPVYPRLVKKIPDGLTPDEAEDMRKRGRQLPPICKLGKNGVYLNLVKQVREAFE 342

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYP 113
              LV+V+C G++ SD +K+GAKLK+LVPC LLSF+ E ILMWRG DWKS  P
Sbjct: 343 ACDLVRVDCSGLNKSDCRKIGAKLKDLVPCTLLSFEFEHILMWRGNDWKSSLP 395

Required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q84N49|CAF1P_MAIZE CRS2-associated factor 1, chloroplastic OS=Zea mays GN=CAF1 PE=1 SV=1

 Score =  159 bits (401), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 71/113 (62%), Positives = 85/113 (75%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKP APVYP+L+ + P GLT  EA E+R +G  L PICKL KNGVY  LV  VR AFE
Sbjct: 283 MLWKPVAPVYPRLVTKVPGGLTPDEATEMRTRGHQLPPICKLGKNGVYANLVNQVREAFE 342

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYP 113
              LV+V+C G++ SD +K+GAKLK+LVPC+LLSF+ E ILMWRG DWKS  P
Sbjct: 343 ACDLVRVDCSGLNKSDCRKIGAKLKDLVPCILLSFEFEHILMWRGSDWKSSLP 395

Required for the splicing of group IIB introns in chloroplasts. Forms splicing particles with CRS2. Interacts with RNA and confers intron specificity of the splicing particles.

Zea mays (taxid: 4577)

>sp|Q6Z4U2|CAF1M_ORYSJ CRS2-associated factor 1, mitochondrial OS=Oryza sativa subsp. japonica GN=Os08g0174900 PE=2 SV=1

 Score =  132 bits (331), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 60/108 (55%), Positives = 82/108 (75%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPA PVYP+LI+   EGLT  E  E+R+KG  +  + KLAKNG Y +LV  VR+AF 
Sbjct: 257 MLWKPAEPVYPRLIKTTIEGLTVEETKEMRKKGLYVPVLTKLAKNGYYASLVPMVRDAFL 316

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDW 108
              LV+++ KG+  SDY+K+G KL++LVPC+++SFD EQI++WRGKD+
Sbjct: 317 TDELVRIDSKGLPKSDYRKIGVKLRDLVPCIIVSFDKEQIIVWRGKDY 364

May be involved for the splicing of group IIB introns in mitochondrions.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8VYD9|CAF1M_ARATH CRS2-associated factor 1, mitochondrial OS=Arabidopsis thaliana GN=At4g31010 PE=2 SV=1

 Score =  130 bits (326), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 58/109 (53%), Positives = 83/109 (76%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKP  PVYP+LI+   +GL+  E   +R+KG ++  + KLAKNG Y +LV  VR+AF 
Sbjct: 259 MLWKPHEPVYPRLIKTTIDGLSIDETKAMRKKGLAVPALTKLAKNGYYGSLVPMVRDAFL 318

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWK 109
            S LV+++C G+   DYKK+GAKL++LVPC+L++FD EQ+++WRGKD+K
Sbjct: 319 VSELVRIDCLGLERKDYKKIGAKLRDLVPCILVTFDKEQVVIWRGKDYK 367

May be involved for the splicing of group IIB introns in mitochondrions.

Arabidopsis thaliana (taxid: 3702)

>sp|Q0J7J7|CAF2M_ORYSJ CRS2-associated factor 2, mitochondrial OS=Oryza sativa subsp. japonica GN=Os08g0188000 PE=2 SV=2

 Score =  120 bits (301), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 54/106 (50%), Positives = 76/106 (71%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKP AP+YP+L+Q   +GLT  +  ELR  G +  P+ KL +NGVY+ +V  VR AF+
Sbjct: 245 MLWKPLAPIYPRLVQNVADGLTFEKTKELRNTGLNSSPLMKLTRNGVYVNVVDRVREAFK 304

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGK 106
              +V+++C  + +SD KK+G KL++LVPCV L F DEQI++WRGK
Sbjct: 305 TVEVVRLDCSHVGSSDCKKIGVKLRDLVPCVPLLFKDEQIILWRGK 350

May be involved for the splicing of group IIB introns in mitochondrions.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9FFU1|CAF2M_ARATH CRS2-associated factor 2, mitochondrial OS=Arabidopsis thaliana GN=At5g54890 PE=2 SV=1

 Score =  112 bits (280), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 49/106 (46%), Positives = 71/106 (66%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKP  P+YP+L++   +GL   E  E+R +G     + KL +NGVY+ +V  VR  FE
Sbjct: 243 MLWKPHPPIYPRLVKNVADGLEFEETKEMRNRGLHSPALMKLTRNGVYVNVVGRVREEFE 302

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGK 106
              +V+++C  +  SD K++G KLKE+VPCV + F DEQI++WRGK
Sbjct: 303 TEEIVRLDCTHVGMSDCKRIGVKLKEMVPCVPILFKDEQIILWRGK 348

May be involved for the splicing of group IIB introns in mitochondrions.

Arabidopsis thaliana (taxid: 3702)

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	265
224110940	506	predicted protein [Populus trichocarpa]	0.992	0.519	0.684	1e-93
255568848	561	conserved hypothetical protein [Ricinus	1.0	0.472	0.683	8e-93
359473240	560	PREDICTED: LOW QUALITY PROTEIN: CRS2-ass	0.966	0.457	0.666	1e-92
225425575	561	PREDICTED: CRS2-associated factor 2, chl	0.973	0.459	0.672	4e-92
356524038	593	PREDICTED: CRS2-associated factor 2, chl	0.901	0.403	0.629	4e-81
449434945	602	PREDICTED: LOW QUALITY PROTEIN: CRS2-ass	0.954	0.420	0.603	1e-80
307135966	603	RNA splicing factor [Cucumis melo subsp.	0.966	0.424	0.610	2e-80
449478585	603	PREDICTED: LOW QUALITY PROTEIN: CRS2-ass	0.954	0.419	0.603	2e-80
147771140	306	hypothetical protein VITISV_034260 [Viti	0.924	0.800	0.624	2e-80
22329751	564	CRS2-associated factor 2 [Arabidopsis th	0.973	0.457	0.598	2e-77

>gi|224110940|ref|XP_002315689.1| predicted protein [Populus trichocarpa] gi|222864729|gb|EEF01860.1| predicted protein [Populus trichocarpa]

 Score =  348 bits (893), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 184/269 (68%), Positives = 217/269 (80%), Gaps = 6/269 (2%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPA PVYPKLIQEAPEGLTK +ADE R+KGK+LLPICKLAKNGVY+TLVRDVR AFE
Sbjct: 240 MLWKPATPVYPKLIQEAPEGLTKAQADEFRKKGKNLLPICKLAKNGVYITLVRDVRAAFE 299

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEP-PSFS 119
           GS LVKV+CKGM  SDYKKLGAKLK+LVPCVLLSFDDEQILMWRG+DWKSMYPE  PS S
Sbjct: 300 GSPLVKVDCKGMEPSDYKKLGAKLKDLVPCVLLSFDDEQILMWRGQDWKSMYPEARPSIS 359

Query: 120 NPVDLDIAGDADGSGTPSDDPSQG---TIRSSPKMISLWKRAIESTKALVLDEINLGPDD 176
            P +LDIA  +D SG   DD        + SSPKM+ LWK A+ES KA++LDEI+LGPD 
Sbjct: 360 FPAELDIASGSDDSGKSDDDCDNSDAKILSSSPKMMLLWKHALESNKAILLDEIDLGPDA 419

Query: 177 LLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDD 236
           LL KVEEFEGISQA EHSYPALV+S EDG+S+S++ +ED S SEN+ ED+ Y +D++ D 
Sbjct: 420 LLTKVEEFEGISQATEHSYPALVMSSEDGSSNSISTFEDDSHSENFSEDDMYSDDEYYDS 479

Query: 237 DEFYDSDSSDVVPLGSLPVDHIAERLQRK 265
           + F + ++S   P GSL +D IAE+L +K
Sbjct: 480 ESFEELETS--APPGSLSIDLIAEKLDKK 506

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568848|ref|XP_002525395.1| conserved hypothetical protein [Ricinus communis] gi|223535358|gb|EEF37033.1| conserved hypothetical protein [Ricinus communis]

 Score =  345 bits (886), Expect = 8e-93,   Method: Compositional matrix adjust.
 Identities = 186/272 (68%), Positives = 221/272 (81%), Gaps = 7/272 (2%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQ+APEGLTK EADE R KGK+LLPICKLAKNGVY+TLVRDVRNAFE
Sbjct: 290 MLWKPAAPVYPKLIQDAPEGLTKAEADEFREKGKNLLPICKLAKNGVYITLVRDVRNAFE 349

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++CKGM+ SDYKKLGAKLKELVPCVLLSFDDE ILMWRG++WK MYPE PS S 
Sbjct: 350 GSPLVKIDCKGMNPSDYKKLGAKLKELVPCVLLSFDDEHILMWRGQNWKPMYPEVPSVST 409

Query: 121 PVDLDIAGDADGSGTPSDDPSQ---GTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
           P   D    +D SG   DDPS      +RSSPKM+SLW+ AIES+KA++LD+I+LGPDDL
Sbjct: 410 PDAADFTSGSDDSGKFEDDPSNRDANVVRSSPKMMSLWECAIESSKAILLDQIDLGPDDL 469

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           L+KVEEFE ISQA EHSYPA++LS EDGA++++A + D S S ++ E++    DD  +DD
Sbjct: 470 LRKVEEFECISQATEHSYPAVILSSEDGANNTVAAFGDDSLSGSFTEEDDTYTDDEYEDD 529

Query: 238 EFYDSDSSD----VVPLGSLPVDHIAERLQRK 265
           E+YDSDS +     VPLGSLPVD +AERL ++
Sbjct: 530 EYYDSDSFEEVDTAVPLGSLPVDRLAERLHQE 561

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473240|ref|XP_003631275.1| PREDICTED: LOW QUALITY PROTEIN: CRS2-associated factor 2, chloroplastic-like [Vitis vinifera]

 Score =  345 bits (884), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 180/270 (66%), Positives = 208/270 (77%), Gaps = 14/270 (5%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EADELR KG +L+PIC+L KNGVY++LV+DVR+AFE
Sbjct: 294 MLWKPAAPVYPKLIQEAPEGLTKFEADELRMKGXNLIPICRLVKNGVYISLVKDVRDAFE 353

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++CKGMHASDYKK+GAKLKE VPCVLLSFDDEQIL WRG  WKSMY   PSF  
Sbjct: 354 GSPLVKIDCKGMHASDYKKIGAKLKESVPCVLLSFDDEQILTWRGHGWKSMYQGAPSFLI 413

Query: 121 PVDLDIAGDADGSGTPSDDPSQ---GTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
           PV  D+A   +GSG P  +  +     + +SPKM+SLWK AIES+KAL+LDEI LGPD L
Sbjct: 414 PVVADVASGLEGSGVPKSNHHRLDTKAVSASPKMMSLWKSAIESSKALLLDEIGLGPDAL 473

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           LK VEEFEGISQA EHSYPALV+S EDG   + AE+E G  SE+Y EDE Y     NDDD
Sbjct: 474 LKVVEEFEGISQATEHSYPALVMSSEDGTGGTKAEHE-GYNSEDYSEDEMY-----NDDD 527

Query: 238 EFYDSDSS-----DVVPLGSLPVDHIAERL 262
           + Y  + S       VPLGSLPVD +A++L
Sbjct: 528 DEYLVNESLEEMESPVPLGSLPVDLLAKQL 557

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425575|ref|XP_002267079.1| PREDICTED: CRS2-associated factor 2, chloroplastic [Vitis vinifera] gi|297739063|emb|CBI28552.3| unnamed protein product [Vitis vinifera]

 Score =  343 bits (880), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 181/269 (67%), Positives = 211/269 (78%), Gaps = 11/269 (4%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EADELR KGK+L+PIC+L KNGVY++LV+DVR+AFE
Sbjct: 294 MLWKPAAPVYPKLIQEAPEGLTKFEADELRMKGKNLIPICRLVKNGVYISLVKDVRDAFE 353

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++CKGMHASDYKK+GAKLKELVPCVLLSFDDEQIL WRG  WKSMY   PSF  
Sbjct: 354 GSPLVKIDCKGMHASDYKKIGAKLKELVPCVLLSFDDEQILTWRGHGWKSMYQGAPSFLI 413

Query: 121 PVDLDIAGDADGSGTPSDDPSQ---GTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
           PV  D+A   +GSG P  +  +     + +SPKM+SLWK AIES+KAL+LDE  LGPD L
Sbjct: 414 PVVADVASGLEGSGIPKSNHHRLDTKAVSASPKMMSLWKSAIESSKALLLDETGLGPDAL 473

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           LK VEEFEGISQA EHSYPALV+S EDG   + AEYE G  SE+Y EDE Y   + +DDD
Sbjct: 474 LKVVEEFEGISQATEHSYPALVMSSEDGTGGTKAEYE-GYNSEDYSEDEMY---NDDDDD 529

Query: 238 EFYDSDS----SDVVPLGSLPVDHIAERL 262
           E+  ++S       VPLGSLPVD +A++L
Sbjct: 530 EYLVNESLEEMESPVPLGSLPVDLLAKQL 558

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524038|ref|XP_003530640.1| PREDICTED: CRS2-associated factor 2, chloroplastic-like [Glycine max]

 Score =  306 bits (785), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 156/248 (62%), Positives = 191/248 (77%), Gaps = 9/248 (3%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQ+AP GLTK EADELR KGKSLLPICKLAKNGVY +LV+DVR+AFE
Sbjct: 295 MLWKPAAPVYPKLIQDAPGGLTKDEADELRMKGKSLLPICKLAKNGVYTSLVKDVRDAFE 354

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK+NCKG+  SDYKK+GAKLK+LVPCVLLSFDDEQILMWRGKDWKS YP+P     
Sbjct: 355 GSILVKINCKGLDPSDYKKIGAKLKDLVPCVLLSFDDEQILMWRGKDWKSRYPQPLPVFT 414

Query: 121 PVDLDIAGDADGSGTPSDDPSQ---GTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
           P   +I G+ + SG   D+  +     + +SPKM+SLWKRAI+S+KAL+LDE NLGPD L
Sbjct: 415 PSKANIVGNLENSGETDDNQYKHDGNMVNTSPKMLSLWKRAIQSSKALLLDEFNLGPDAL 474

Query: 178 LKKVEEFEGISQAAEHSYPALVL-SREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDD 236
           L+KVEEF+ +SQA EHS+PA  L S+E+ A  S A +E+     +Y  D  + E+D+   
Sbjct: 475 LEKVEEFDTVSQALEHSHPAFSLSSKENDAEGSSANFEN-----SYSSDGLHTEEDYAKF 529

Query: 237 DEFYDSDS 244
           ++ Y SD+
Sbjct: 530 EDSYSSDA 537

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434945|ref|XP_004135256.1| PREDICTED: LOW QUALITY PROTEIN: CRS2-associated factor 2, chloroplastic-like [Cucumis sativus]

 Score =  305 bits (782), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 163/270 (60%), Positives = 200/270 (74%), Gaps = 17/270 (6%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EA+ LR KGK+LLPICKLAKNGVY++LV DVR+AFE
Sbjct: 339 MLWKPAAPVYPKLIQEAPEGLTKKEANVLRMKGKNLLPICKLAKNGVYISLVNDVRHAFE 398

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++C GMH SDYKKLGAKLKELVPCVLLSFD+EQILMWRGKDWKS+  +  S   
Sbjct: 399 GSILVKIDCTGMHESDYKKLGAKLKELVPCVLLSFDNEQILMWRGKDWKSIISDDRSAPL 458

Query: 121 PVDLDIAGDADGSGTPSDD--------PSQGTIRSSPKMISLWKRAIESTKALVLDEINL 172
           P     A   D  G+P +          +  TI++SPKM  LW+ AI+S KAL+LDEI L
Sbjct: 459 PSR---ASSNDSLGSPGESLENSDLLHGNHHTIKTSPKMKLLWEHAIDSNKALLLDEIGL 515

Query: 173 GPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDD 232
            PDDLL+KVEEFE ISQA EHSYPA + S ED +S      +D  +S+++ E  +  +DD
Sbjct: 516 APDDLLEKVEEFERISQATEHSYPAFITSSEDVSSP-----DDSPKSQDHTEANYNSDDD 570

Query: 233 FNDDDEFYDSDSSDVVPLGSLPVDHIAERL 262
              +++ +D ++  +VPLGSLPVD IA++L
Sbjct: 571 VGREEDLFD-NADPLVPLGSLPVDIIAKKL 599

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307135966|gb|ADN33825.1| RNA splicing factor [Cucumis melo subsp. melo]

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 163/267 (61%), Positives = 202/267 (75%), Gaps = 11/267 (4%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EA+ELR KGK+LLPICKLAKNGVY++LV DVR+AFE
Sbjct: 340 MLWKPAAPVYPKLIQEAPEGLTKEEANELRMKGKNLLPICKLAKNGVYISLVDDVRHAFE 399

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPE---PPS 117
           GS LVK++C GMH SDYKKLGAKLKELVPCVLLSFD+EQILMWRGKDWKS+  +    P 
Sbjct: 400 GSILVKIDCTGMHESDYKKLGAKLKELVPCVLLSFDNEQILMWRGKDWKSVISDDRSAPL 459

Query: 118 FSNPVDLDIAGDADGSGTPSD--DPSQGTIRSSPKMISLWKRAIESTKALVLDEINLGPD 175
            S     D  G +  S   SD  + +  TI++SPKM  LW+RAI+S KAL+LDEI L PD
Sbjct: 460 PSRASSNDSLGSSGESVENSDLLNGNHHTIKTSPKMKLLWERAIDSNKALMLDEIGLAPD 519

Query: 176 DLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFND 235
           +LL++VEEFE ISQA EHSYPA + S E+ +S +     D  +S+++ E  +  +DD   
Sbjct: 520 ELLERVEEFERISQATEHSYPAFITSSEEVSSPA-----DSPESQDHSEANYNSDDDVGR 574

Query: 236 DDEFYDSDSSDVVPLGSLPVDHIAERL 262
           +++ +D +   +VPLGSLPVD IA++L
Sbjct: 575 EEDLFD-NVDPLVPLGSLPVDIIAKKL 600

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449478585|ref|XP_004155360.1| PREDICTED: LOW QUALITY PROTEIN: CRS2-associated factor 2, chloroplastic-like [Cucumis sativus]

 Score =  304 bits (779), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 163/270 (60%), Positives = 200/270 (74%), Gaps = 17/270 (6%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EA+ LR KGK+LLPICKLAKNGVY++LV DVR+AFE
Sbjct: 340 MLWKPAAPVYPKLIQEAPEGLTKKEANVLRMKGKNLLPICKLAKNGVYISLVNDVRHAFE 399

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++C GMH SDYKKLGAKLKELVPCVLLSFD+EQILMWRGKDWKS+  +  S   
Sbjct: 400 GSILVKIDCTGMHESDYKKLGAKLKELVPCVLLSFDNEQILMWRGKDWKSIISDDCSAPL 459

Query: 121 PVDLDIAGDADGSGTPSDD--------PSQGTIRSSPKMISLWKRAIESTKALVLDEINL 172
           P     A   D  G+P +          +  TI++SPKM  LW+ AI+S KAL+LDEI L
Sbjct: 460 P---SRASSNDSLGSPGESLENSDLLHDNHHTIKTSPKMKLLWEHAIDSNKALLLDEIGL 516

Query: 173 GPDDLLKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDD 232
            PDDLL+KVEEFE ISQA EHSYPA + S ED +S      +D  +S+++ E  +  +DD
Sbjct: 517 APDDLLEKVEEFERISQATEHSYPAFITSSEDVSSP-----DDSPKSQDHTEANYNSDDD 571

Query: 233 FNDDDEFYDSDSSDVVPLGSLPVDHIAERL 262
              +++ +D ++  +VPLGSLPVD IA++L
Sbjct: 572 VGREEDLFD-NADPLVPLGSLPVDIIAKKL 600

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771140|emb|CAN74182.1| hypothetical protein VITISV_034260 [Vitis vinifera]

 Score =  304 bits (779), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 168/269 (62%), Positives = 198/269 (73%), Gaps = 24/269 (8%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQEAPEGLTK EADELR KGK+L+PIC+L KNGVY++LV+DVR+AFE
Sbjct: 52  MLWKPAAPVYPKLIQEAPEGLTKFEADELRMKGKNLIPICRLVKNGVYISLVKDVRDAFE 111

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
           GS LVK++CKGMHASDYKK+GAKLK              IL WRG  WKSMY   PSF  
Sbjct: 112 GSPLVKIDCKGMHASDYKKIGAKLK--------------ILTWRGHGWKSMYQGAPSFLI 157

Query: 121 PVDLDIAGDADGSGTPSDDPSQ---GTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
           PV  D+A   +GSG P     +     + +SPKM+SLWK AIES+KAL+LDEI LGPD L
Sbjct: 158 PVVADVASGLEGSGIPKSXHHRLDTKAVSASPKMMSLWKSAIESSKALLLDEIGLGPDAL 217

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           LK VEEFEGISQA EHSYPALV+S EDG   + AE E G  SE+Y EDE Y  +D +DDD
Sbjct: 218 LKVVEEFEGISQATEHSYPALVMSSEDGTGGTKAEXE-GYNSEDYSEDEMY--NDDDDDD 274

Query: 238 EFYDSDSSDV----VPLGSLPVDHIAERL 262
           E+  ++S +     VPLGSLPVD +A++L
Sbjct: 275 EYLVNESLEEMESPVPLGSLPVDLLAKQL 303

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22329751|ref|NP_173754.2| CRS2-associated factor 2 [Arabidopsis thaliana] gi|75173812|sp|Q9LDA9.1|CAF2P_ARATH RecName: Full=CRS2-associated factor 2, chloroplastic; AltName: Full=Chloroplastic group IIA intron splicing facilitator CRS2-associated factor 2; Flags: Precursor gi|8778588|gb|AAF79596.1|AC007945_16 F28C11.4 [Arabidopsis thaliana] gi|9295699|gb|AAF87005.1|AC005292_14 F26F24.27 [Arabidopsis thaliana] gi|17065312|gb|AAL32810.1| Unknown protein [Arabidopsis thaliana] gi|21387129|gb|AAM47968.1| unknown protein [Arabidopsis thaliana] gi|332192262|gb|AEE30383.1| CRS2-associated factor 2 [Arabidopsis thaliana]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 161/269 (59%), Positives = 202/269 (75%), Gaps = 11/269 (4%)

Query: 1   MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
           MLWKPAAPVYPKLIQE PEGLTK EA E R KGKSL PICKL+KNGVY++LV+DVR+AFE
Sbjct: 301 MLWKPAAPVYPKLIQEVPEGLTKEEAHEFRVKGKSLRPICKLSKNGVYVSLVKDVRDAFE 360

Query: 61  GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
            SSLVKV+C G+  SDYKK+GAKLKELVPCVLLSFDDEQILMWRG++WKS + + P   +
Sbjct: 361 LSSLVKVDCPGLEPSDYKKIGAKLKELVPCVLLSFDDEQILMWRGREWKSRFVDNPLIPS 420

Query: 121 PVDLDIAGDADGSGTPSDDPSQG---TIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
             + +   + D S  PS++ +     T  SSPKMISLW+RA+ES+KA++L+E++LGPDDL
Sbjct: 421 LSETNTTNELDPSDKPSEEQTVANPSTTISSPKMISLWQRALESSKAVILEELDLGPDDL 480

Query: 178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSENYDEDEFYPEDDFNDDD 237
           LKKVEE EG S AAEH+Y A+VLS  DGA+    + +D S+       E+Y + D + DD
Sbjct: 481 LKKVEELEGTSLAAEHTYTAMVLSNTDGAAEDYVDEKDRSE-------EYYSDIDDDFDD 533

Query: 238 EFYDSDSSDVV-PLGSLPVDHIAERLQRK 265
           E  D +S D V P+GSLPVD I  +L+ +
Sbjct: 534 ECSDDESLDPVGPVGSLPVDKIVRKLRER 562

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	265
TAIR|locus:2028100	564	CAF2 [Arabidopsis thaliana (ta	0.977	0.459	0.567	8.4e-74
TAIR|locus:2061604	701	CAF1 [Arabidopsis thaliana (ta	0.581	0.219	0.519	5.4e-49
TAIR|locus:2126694	405	AT4G31010 [Arabidopsis thalian	0.535	0.350	0.456	3.4e-29
TAIR|locus:2160195	358	AT5G54890 [Arabidopsis thalian	0.4	0.296	0.462	6.8e-24

TAIR|locus:2028100 CAF2 [Arabidopsis thaliana (taxid:3702)]

 Score = 745 (267.3 bits), Expect = 8.4e-74, P = 8.4e-74
 Identities = 152/268 (56%), Positives = 189/268 (70%)

Query:     1 MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
             MLWKPAAPVYPKLIQE PEGLTK EA E R KGKSL PICKL+KNGVY++LV+DVR+AFE
Sbjct:   301 MLWKPAAPVYPKLIQEVPEGLTKEEAHEFRVKGKSLRPICKLSKNGVYVSLVKDVRDAFE 360

Query:    61 GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
              SSLVKV+C G+  SDYKK+GAKLKELVPCVLLSFDDEQILMWRG++WKS + + P   +
Sbjct:   361 LSSLVKVDCPGLEPSDYKKIGAKLKELVPCVLLSFDDEQILMWRGREWKSRFVDNPLIPS 420

Query:   121 PVDLDIAGDADGSGTPSDDPS---QGTIRSSPKMISLWKRAIESTKALVLDEINLGPDDL 177
               + +   + D S  PS++ +     T  SSPKMISLW+RA+ES+KA++L+E++LGPDDL
Sbjct:   421 LSETNTTNELDPSDKPSEEQTVANPSTTISSPKMISLWQRALESSKAVILEELDLGPDDL 480

Query:   178 LKKVEEFEGISQAAEHSYPALVLSREDGASSSMAEYEDGSQSXXXXXXXXXXXXXXXXXX 237
             LKKVEE EG S AAEH+Y A+VLS  DGA+    + +D S+                   
Sbjct:   481 LKKVEELEGTSLAAEHTYTAMVLSNTDGAAEDYVDEKDRSEEYYSDIDDDFDDECSDDES 540

Query:   238 XXXXXXXXXVVPLGSLPVDHIAERLQRK 265
                      V P+GSLPVD I  +L+ +
Sbjct:   541 LDP------VGPVGSLPVDKIVRKLRER 562

GO:0003723 "RNA binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0000373 "Group II intron splicing" evidence=IDA

TAIR|locus:2061604 CAF1 [Arabidopsis thaliana (taxid:3702)]

 Score = 441 (160.3 bits), Expect = 5.4e-49, Sum P(3) = 5.4e-49
 Identities = 81/156 (51%), Positives = 114/156 (73%)

Query:     1 MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
             MLWKP APVYP+LIQ+ PEGLT+ EA  +RRKG+ L+PICKL KNGVY  LV++V+ AFE
Sbjct:   341 MLWKPVAPVYPRLIQQVPEGLTRQEATNMRRKGRELMPICKLGKNGVYCDLVKNVKEAFE 400

Query:    61 GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSN 120
                LV+++C+GM  SD++K+GAKLK+LVPCVL+SF++EQIL+WRG++WKS    P    +
Sbjct:   401 VCELVRIDCQGMKGSDFRKIGAKLKDLVPCVLVSFENEQILIWRGREWKSSLTTPDKKGD 460

Query:   121 PV-DLDIAGDADGSGTPSDDPSQG-TIRSSPKMISL 154
              + D+++         PS  P+Q  T+  +P + S+
Sbjct:   461 ILEDIEVDTALPEDDEPSVSPNQSQTMTQNPPLDSM 496

GO:0003723 "RNA binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0000373 "Group II intron splicing" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

TAIR|locus:2126694 AT4G31010 [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 3.4e-29, P = 3.4e-29
 Identities = 68/149 (45%), Positives = 97/149 (65%)

Query:     1 MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
             MLWKP  PVYP+LI+   +GL+  E   +R+KG ++  + KLAKNG Y +LV  VR+AF 
Sbjct:   259 MLWKPHEPVYPRLIKTTIDGLSIDETKAMRKKGLAVPALTKLAKNGYYGSLVPMVRDAFL 318

Query:    61 GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGKDWKSMYP--EPPSF 118
              S LV+++C G+   DYKK+GAKL++LVPC+L++FD EQ+++WRGKD+K      E  SF
Sbjct:   319 VSELVRIDCLGLERKDYKKIGAKLRDLVPCILVTFDKEQVVIWRGKDYKPPKEDDEYSSF 378

Query:   119 ---SNPVDLDIAGDADGSGTPSDDPSQGT 144
                 + +D D+  D   S    D P + T
Sbjct:   379 IHRESSIDSDV--DLSCSRGAQDSPDETT 405

GO:0003723 "RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

GO:0010048 "vernalization response" evidence=RCA

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2160195 AT5G54890 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 6.8e-24, P = 6.8e-24
 Identities = 49/106 (46%), Positives = 71/106 (66%)

Query:     1 MLWKPAAPVYPKLIQEAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFE 60
             MLWKP  P+YP+L++   +GL   E  E+R +G     + KL +NGVY+ +V  VR  FE
Sbjct:   243 MLWKPHPPIYPRLVKNVADGLEFEETKEMRNRGLHSPALMKLTRNGVYVNVVGRVREEFE 302

Query:    61 GSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQILMWRGK 106
                +V+++C  +  SD K++G KLKE+VPCV + F DEQI++WRGK
Sbjct:   303 TEEIVRLDCTHVGMSDCKRIGVKLKEMVPCVPILFKDEQIILWRGK 348


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.313   0.133   0.388    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      265       238   0.00091  113 3  11 23  0.50    33
                                                     32  0.44    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  609 (65 KB)
  Total size of DFA:  187 KB (2106 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  22.85u 0.10s 22.95t   Elapsed:  00:00:01
  Total cpu time:  22.85u 0.10s 22.95t   Elapsed:  00:00:01
  Start:  Fri May 10 14:11:11 2013   End:  Fri May 10 14:11:12 2013

GO:0003723 "RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	265
pfam01985	84	pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	2e-18
smart01103	84	smart01103, CRS1_YhbY, Escherichia coli YhbY is as	2e-16

>gnl|CDD|190184 pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain

 Score = 77.5 bits (192), Expect = 2e-18
 Identities = 23/84 (27%), Positives = 39/84 (46%)

Query: 21  LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
           LT  +   LR     L P+ ++ KNG+   +V ++  A E   L+KV   G    D K++
Sbjct: 1   LTGKQRRYLRSLAHHLKPVVQIGKNGLTEGVVEEIDEALEKHELIKVKVLGNDREDRKEI 60

Query: 81  GAKLKELVPCVLLSFDDEQILMWR 104
             +L E     L+      I+++R
Sbjct: 61  AEELAEKTGAELVQVIGRTIVLYR 84

Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome. Length = 84

>gnl|CDD|198171 smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly

 Score = 71.7 bits (177), Expect = 2e-16
 Identities = 22/84 (26%), Positives = 40/84 (47%)

Query: 21  LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
           LT  +   LR     L P+ ++ KNG+   ++ ++  A E   L+KV   G    D K++
Sbjct: 1   LTGKQKRYLRSLAHHLKPVVQIGKNGLTEGVLEEIDEALEKHELIKVKVLGNDREDRKEI 60

Query: 81  GAKLKELVPCVLLSFDDEQILMWR 104
             +L E     L+    + I+++R
Sbjct: 61  AEELAEETGAELVQVIGKTIVLYR 84

GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome. Length = 84

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
PF01985	84	CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR	99.76
KOG1990	564	consensus Poly(A)-specific exoribonuclease PARN [R	99.56
TIGR00253	95	RNA_bind_YhbY putative RNA-binding protein, YhbY f	99.29
PRK10343	97	RNA-binding protein YhbY; Provisional	98.96
COG1534	97	Predicted RNA-binding protein containing KH domain	98.96
KOG1990	564	consensus Poly(A)-specific exoribonuclease PARN [R	98.91

>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain

Probab=99.76  E-value=1.6e-18  Score=131.91  Aligned_cols=84  Identities=27%  Similarity=0.439  Sum_probs=75.6

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||.+|++.||+.+.+|+|++.+||||++.+++++|+++|+.+|||||-|.+....|.+.++..|.+.++|.+|.+.|..+
T Consensus         1 Lt~ke~~~Lr~~a~~l~p~v~IGk~Glt~~vi~~i~~~l~~~eLvKVk~~~~~~~~~~~~~~~l~~~t~~~~V~~iG~~~   80 (84)
T PF01985_consen    1 LTSKERKFLRKLAHHLKPVVQIGKNGLTDGVIEEIDDALEKHELVKVKVLGNCREDRKEIAEQLAEKTGAEVVQVIGRTI   80 (84)
T ss_dssp             --HHHHHHHHHHHTTC--SEEE-TTSS-HHHHHHHHHHHHHHSEEEEEETT--HHHHHHHHHHHHHHHTEEEEEEETTEE
T ss_pred             CCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHhCCeeEEEEccCCHHHHHHHHHHHHHHhCCEEEEEECCEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEe
Q 024576          101 LMWR  104 (265)
Q Consensus       101 ImwR  104 (265)
                      |+||
T Consensus        81 vlyR   84 (84)
T PF01985_consen   81 VLYR   84 (84)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            9998

The name chloroplast RNA splicing and ribosome maturation (CRM) has been suggested to reflect the functions established for the four characterised members of the family: Zea mays (Maize) CRS1 (Q9FYT6 from SWISSPROT), CAF1 (Q84N49 from SWISSPROT) and CAF2 (Q84N48 from SWISSPROT) proteins and the Escherichia coli protein YhbY (P0AGK4 from SWISSPROT). The CRM domain is found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets [, ]. The CRM domain is a compact alpha/beta domain consisting of a four-stranded beta sheet and three alpha helices with an alpha-beta-alpha-beta-alpha-beta-beta topology. The beta sheet face is basic, consistent with a role in RNA binding. Proximal to the basic beta sheet face is another moiety that could contribute to nucleic acid recognition. Connecting strand beta1 and helix alpha2 is a loop with a six amino acid motif, GxxG flanked by large aliphatic residues, within which one 'x' is typically a basic residue []. Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants []. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing []. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes []. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome [].; GO: 0003723 RNA binding; PDB: 1RQ8_A 1JO0_B 1LN4_A.

>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]

Probab=99.56  E-value=1.2e-15  Score=149.41  Aligned_cols=108  Identities=24%  Similarity=0.334  Sum_probs=102.8

Q ss_pred             cCCCCCCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCc-chHHHHHHHhhhccCeEEEe
Q 024576           16 EAPEGLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHA-SDYKKLGAKLKELVPCVLLS   94 (265)
Q Consensus        16 ~~pEGLT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~-sD~kKiG~kLkdLvpciLls   94 (265)
                      ..||.+|.+|..++++.|..+..++.+||+|+|.|++.|||.||+++|+|+++|+..+. +..+..|..+..++++++++
T Consensus       378 ~~~e~~t~ee~~~~~k~g~k~~~~~~~~rrg~f~g~i~n~~l~wk~~e~~k~i~~~~~~~~~~~~~a~~le~esg~~~v~  457 (564)
T KOG1990|consen  378 YDPESITEEERLMLRKVGLKMKRRLLSGRRGVFDGVIENMHLHWKSRELVKVICKEKNLPSQVKQYASALERESGGILVS  457 (564)
T ss_pred             cchhhcChHHHHHHHHHHHhhccccccCCcccccceeecchhhhhhcccceeeeccccccHHHHHHHHHHHHHhCCceee
Confidence            44699999999999999999999999999999999999999999999999999998888 99999999999999999999


Q ss_pred             ec----CcEEEEEecCCCCCCCCCCCCCCCccc
Q 024576           95 FD----DEQILMWRGKDWKSMYPEPPSFSNPVD  123 (265)
Q Consensus        95 fd----~e~IImwRGKdyk~~~~~~p~~ll~k~  123 (265)
                      ++    +++|++|||++|.++...+|.+.+++.
T Consensus       458 ~~~~~~~~ai~~yr~k~y~~p~~l~P~~~l~~~  490 (564)
T KOG1990|consen  458 IDKNPKGYAIIAYRGKNYDRPTSLRPRNLLSRR  490 (564)
T ss_pred             eccCCchhhHHHhhhhhccCCcccCchhhhccc
Confidence            97    788999999999999999999998654

>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family

Probab=99.29  E-value=2.3e-11  Score=96.43  Aligned_cols=86  Identities=22%  Similarity=0.348  Sum_probs=83.5

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||-.++..||..|.+|+|.+-.||||+-.++++.+.+|++.+|||||-.-+-...|.+.++..|...++|.+|..-|..+
T Consensus         1 Lt~kqr~~Lr~~ah~l~p~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~~~~~~e~a~~i~~~~~a~~Vq~iG~~~   80 (95)
T TIGR00253         1 LTGKQKRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATEDREDKTLIAEALVKETGACNVQVIGKTI   80 (95)
T ss_pred             CCHHHHHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEEEEccEE
Confidence            78899999999999999999999999999999999999999999999999888899999999999999999999999999


Q ss_pred             EEEecC
Q 024576          101 LMWRGK  106 (265)
Q Consensus       101 ImwRGK  106 (265)
                      |+||..
T Consensus        81 vlYR~~   86 (95)
T TIGR00253        81 VLYRPT   86 (95)
T ss_pred             EEEecC
Confidence            999985

A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.

>PRK10343 RNA-binding protein YhbY; Provisional

Probab=98.96  E-value=3.5e-09  Score=84.60  Aligned_cols=86  Identities=15%  Similarity=0.256  Sum_probs=83.4

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||..++..||..+-+++|++..|+||+=.+++..+.+|.+.+||+||-.-+....|-+.++..|...++|-+|..-|..+
T Consensus         3 Lt~kqr~~LR~~ah~l~Pvv~IGk~Glt~~vi~ei~~aL~~hELIKvkv~~~~~~~~~e~~~~i~~~~~ae~Vq~IG~~~   82 (97)
T PRK10343          3 LSTKQKQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATEDRETKTLIVEAIVRETGACNVQVIGKTL   82 (97)
T ss_pred             CCHHHHHHHHHhcCCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEeeeCcEE
Confidence            89999999999999999999999999999999999999999999999999888899999999999999999999999999


Q ss_pred             EEEecC
Q 024576          101 LMWRGK  106 (265)
Q Consensus       101 ImwRGK  106 (265)
                      |+||=.
T Consensus        83 vlYR~~   88 (97)
T PRK10343         83 VLYRPT   88 (97)
T ss_pred             EEEecC
Confidence            999965

>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]

Probab=98.96  E-value=4.1e-09  Score=84.82  Aligned_cols=90  Identities=24%  Similarity=0.381  Sum_probs=85.6

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||-++...||.+..++.|++-.|+||+=.++++.+..+.+.+|||||-.-+-...|-+.++.+|-+.++|-||.+-|..+
T Consensus         2 Lt~kq~~~Lrs~Ah~l~piv~IGk~Glte~vi~Ei~~aL~~reLIKVkvl~~~~edr~eia~~l~~~~~a~lVqviG~~~   81 (97)
T COG1534           2 LTGKQKRFLRSKAHHLKPIVQIGKNGLTEGVIKEIDRALEARELIKVKVLQNAREDKKEIAEALAEETGAELVQVIGKTL   81 (97)
T ss_pred             CcHHHHHHHHHhhccCCceEEecCCccCHHHHHHHHHHHHhCCcEEEEeeccchhhHHHHHHHHHHHhCCEEeeeeeeEE
Confidence            78899999999999999999999999999999999999999999999999889999999999999999999999999999


Q ss_pred             EEEecCCCCCC
Q 024576          101 LMWRGKDWKSM  111 (265)
Q Consensus       101 ImwRGKdyk~~  111 (265)
                      |+|| .+|...
T Consensus        82 vlyr-~~~e~~   91 (97)
T COG1534          82 VLYR-ESKEKR   91 (97)
T ss_pred             EEEe-cCcccc
Confidence            9999 555543

>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]

Probab=98.91  E-value=5.9e-10  Score=109.78  Aligned_cols=109  Identities=26%  Similarity=0.326  Sum_probs=102.7

Q ss_pred             CCCCcccccccCCCC----CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEecc-CCCcchHHHH
Q 024576            6 AAPVYPKLIQEAPEG----LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCK-GMHASDYKKL   80 (265)
Q Consensus         6 ~~PvYprli~~~pEG----LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCk-g~~~sD~kKi   80 (265)
                      .-|.|-++.+.+|-|    ||..|.+.+|+.|..+|||+.+|+++...+++..|+.+|+.++..|+.|+ |+.....+.+
T Consensus       156 ~i~~~~~p~r~l~~~~~~~l~~~~~~~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~~~~~~~~  235 (564)
T KOG1990|consen  156 KIPDYMRPFRTLPVGSPPLLTSIESTLLRRLGYKLPPHFALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVLETRKERM  235 (564)
T ss_pred             hhhcccChhccCCCCChhhhhhHHHHHHHHhcccccccceehhccccccchhHHHHHHHHHHHHHHHHHhcchhhhccch
Confidence            457888899998888    99999999999999999999999999999999999999999999999999 9999999999


Q ss_pred             HHHh--hhccCeEEEeecCcEEEEEecCCCCCCCCC
Q 024576           81 GAKL--KELVPCVLLSFDDEQILMWRGKDWKSMYPE  114 (265)
Q Consensus        81 G~kL--kdLvpciLlsfd~e~IImwRGKdyk~~~~~  114 (265)
                      |..|  +.++|++||+..+..++|||||+|..+.+.
T Consensus       236 a~~l~~~~~tg~~lv~hN~~~dv~y~~~~Fl~~lp~  271 (564)
T KOG1990|consen  236 ADELQELLLTGKVLVLHNKLLDVMYRYKNFLSPLPS  271 (564)
T ss_pred             HHHHHHHHhcCCeEEeeccceeeeeehhhcccccch
Confidence            9999  999999999999999999999999995543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	265
1jo0_A	98	Hypothetical protein HI1333; structural genomics,	2e-05
1rq8_A	104	Conserved hypothetical protein; structural genomic	3e-04

>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A Length = 98

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 13/72 (18%), Positives = 26/72 (36%)

Query: 21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
          L+  +   L+     L P+  L  NG+   ++ ++ NA     L+KV   G      + +
Sbjct: 3  LSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLI 62

Query: 81 GAKLKELVPCVL 92
             +        
Sbjct: 63 INAIVRETKAAQ 74

>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1 Length = 104

 Score = 38.5 bits (90), Expect = 3e-04
 Identities = 18/72 (25%), Positives = 33/72 (45%)

Query: 21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
          LT  +   LR    ++ PI ++ K G+   +++ + +  E   L+KV+    +  D K+L
Sbjct: 2  LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKEL 61

Query: 81 GAKLKELVPCVL 92
             L E     L
Sbjct: 62 AETLSEATRSEL 73

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
1jo0_A	98	Hypothetical protein HI1333; structural genomics,	99.53
1rq8_A	104	Conserved hypothetical protein; structural genomic	99.53

>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A

Probab=99.53  E-value=2e-14  Score=112.83  Aligned_cols=86  Identities=16%  Similarity=0.262  Sum_probs=84.7

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||..|+..||..+.+|+|++.+||||+-.++++.+++||+.+|||||-|.+....|.+.++..|.+.++|.+|.+-|..+
T Consensus         3 Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~IG~~~   82 (98)
T 1jo0_A            3 LSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTIGHIL   82 (98)
T ss_dssp             CCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEETTEE
T ss_pred             CCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHHCCeEEEEEeCCCHHHHHHHHHHHHHHhCCEEEEEECCEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecC
Q 024576          101 LMWRGK  106 (265)
Q Consensus       101 ImwRGK  106 (265)
                      |+||+.
T Consensus        83 vLyR~~   88 (98)
T 1jo0_A           83 VLYRPS   88 (98)
T ss_dssp             EEECCC
T ss_pred             EEEccC
Confidence            999987

>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1

Probab=99.53  E-value=4.3e-14  Score=112.41  Aligned_cols=93  Identities=22%  Similarity=0.328  Sum_probs=87.5

Q ss_pred             CCCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcE
Q 024576           20 GLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQ   99 (265)
Q Consensus        20 GLT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~   99 (265)
                      .||..|+..||..|-+|+|++.+||||+-.++++.|.+||+.+|||||-|.+....|.+.++..|.+.++|.+|..-|..
T Consensus         1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq~IG~~   80 (104)
T 1rq8_A            1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVIGSM   80 (104)
T ss_dssp             CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEEETTE
T ss_pred             CCCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEEeCCCHHHHHHHHHHHHHHhCCEEEEEECCE
Confidence            38999999999999999999999999999999999999999999999999998999999999999999999999999999


Q ss_pred             EEEEecCCCCCCC
Q 024576          100 ILMWRGKDWKSMY  112 (265)
Q Consensus       100 IImwRGKdyk~~~  112 (265)
                      +|+||++.-++.+
T Consensus        81 ~VLYR~~~~~~~i   93 (104)
T 1rq8_A           81 IVIYRESKENKEI   93 (104)
T ss_dssp             EEEEECCCSCCSC
T ss_pred             EEEEeCCCCCCce
Confidence            9999987633333

---

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	265
d1jo0a_	97	d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus i	3e-14
d1rq8a_	96	d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphy	3e-14

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]} Length = 97

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: YhbY homologue HI1333
species: Haemophilus influenzae [TaxId: 727]

 Score = 64.7 bits (158), Expect = 3e-14
 Identities = 14/87 (16%), Positives = 33/87 (37%)

Query: 21  LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
           L+  +   L+     L P+  L  NG+   ++ ++ NA     L+KV   G      + +
Sbjct: 3   LSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLI 62

Query: 81  GAKLKELVPCVLLSFDDEQILMWRGKD 107
              +        +      ++++R  +
Sbjct: 63  INAIVRETKAAQVQTIGHILVLYRPSE 89

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]} Length = 96

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: Hypothetical protein SAV1595
species: Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]

 Score = 64.7 bits (158), Expect = 3e-14
 Identities = 22/101 (21%), Positives = 41/101 (40%), Gaps = 6/101 (5%)

Query: 21  LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKL 80
           LT  +   LR    ++ PI ++ K G+   +++ + +  E   L+KV+    +  D K+L
Sbjct: 2   LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKEL 61

Query: 81  GAKLKELVPCVLLSFDDEQILMWRGKDWKSMYPEPPSFSNP 121
              L E     L+      I+++R         E      P
Sbjct: 62  AETLSEATRSELVQVIGSMIVIYRES------KENKEIELP 96

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	265
d1jo0a_	97	YhbY homologue HI1333 {Haemophilus influenzae [Tax	99.77
d1rq8a_	96	Hypothetical protein SAV1595 {Staphylococcus aureu	99.76

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: YhbY homologue HI1333
species: Haemophilus influenzae [TaxId: 727]

Probab=99.77  E-value=3.4e-19  Score=136.67  Aligned_cols=88  Identities=16%  Similarity=0.263  Sum_probs=85.4

Q ss_pred             CCCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcE
Q 024576           20 GLTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQ   99 (265)
Q Consensus        20 GLT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~   99 (265)
                      .||..|+..||+.|.+|+|++.+||||++.++|+.|++||+.+|||||.|.+....|.+.++.+|.+.++|.+|.+.|..
T Consensus         2 tLt~kqr~~LR~~ah~lkp~v~IGk~Glt~~vi~ei~~al~~~ELIKvki~~~~~~~~~~~~~~l~~~t~~~vV~~iG~~   81 (97)
T d1jo0a_           2 TLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTIGHI   81 (97)
T ss_dssp             CCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEETTE
T ss_pred             CCCHHHHHHHHHHhcCCCCEEEECCCCCCHHHHHHHHHHHHhCCeEEEEEcCCCHHHHHHHHHHHHHHhCCEEEEEECCE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCC
Q 024576          100 ILMWRGKD  107 (265)
Q Consensus       100 IImwRGKd  107 (265)
                      +|+||+.+
T Consensus        82 ~ilYR~~~   89 (97)
T d1jo0a_          82 LVLYRPSE   89 (97)
T ss_dssp             EEEECCCS
T ss_pred             EEEEcCCC
Confidence            99999743

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: Hypothetical protein SAV1595
species: Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]

Probab=99.76  E-value=1.7e-18  Score=132.55  Aligned_cols=93  Identities=22%  Similarity=0.339  Sum_probs=88.3

Q ss_pred             CCHHHHHHHHHcCcCcccccccccccchhhHHHHHHHHhccCceEEEeccCCCcchHHHHHHHhhhccCeEEEeecCcEE
Q 024576           21 LTKHEADELRRKGKSLLPICKLAKNGVYLTLVRDVRNAFEGSSLVKVNCKGMHASDYKKLGAKLKELVPCVLLSFDDEQI  100 (265)
Q Consensus        21 LT~EE~~emRk~Gl~l~~~~kLgRNGVY~glV~~Vr~afe~~ELVKIdCkg~~~sD~kKiG~kLkdLvpciLlsfd~e~I  100 (265)
                      ||..|+..||+.|.+|+|++.+||||+..++++.|++||+.+|||||.|.+....|.+.++.+|.+.++|.+|.+-|..+
T Consensus         2 Lt~kqr~~LR~~ah~l~p~v~IGk~Glt~~vi~ei~~~l~~~ELIKvk~~~~~~~~~~~~~~~l~~~t~a~~V~~iG~~~   81 (96)
T d1rq8a_           2 LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVIGSMI   81 (96)
T ss_dssp             CCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEEETTEE
T ss_pred             cCHHHHHHHHHHhcCCCCEEEECCCCCCHHHHHHHHHHHHhCCeeEEEecCCCHHHHHHHHHHHHHHhCCEEEEEECCEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCCCCC
Q 024576          101 LMWRGKDWKSMYP  113 (265)
Q Consensus       101 ImwRGKdyk~~~~  113 (265)
                      |+||+...++...
T Consensus        82 vlyR~~~~~~ki~   94 (96)
T d1rq8a_          82 VIYRESKENKEIE   94 (96)
T ss_dssp             EEEECCCSCCSCC
T ss_pred             EEEeCCCCCCCCC
Confidence            9999876554443