Citrus Sinensis ID: 023439

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280--
Protein Sequence
MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYERKFNFHLCSTILVFPNSVRSQGLKLPSVSGLRQAQL
Secondary Structure (PSIPRED)
ccccccHHHHHHcccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHcccEEEEccccccccccEEEEEEcccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccHHHHHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHcccEEEEcccccccccEEEEEEcccccccccHHcccccccccccccccccEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccEEEEEcccccccccEcccccHHHHHcc
Coil and Loop (DISEMBL)
MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRflqnpdqqhfefqhfpTSYLRLAAHRVSQHYGLVTMVQEngieglgnRILVRKTAeskypavrlseipakqseesdKLEKIKIAIrrrpnagcvnganetgtkrspvrsveERKEEYDRARARifsgpsspnsedtLTQVSTDMknigfnrdeREIVRNSITDAEKIISIrdgaglsrvaifrdrekdrtdpdydrsyerkfNFHLCSTIlvfpnsvrsqglklpsvsglrqaql
Flexible Loop (DISEMBL)
MDSASSATAAAAivneresmvDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAeskypavrlseipakqseesdkLEKIKIairrrpnagcvnganetgtkrspvrsveerkeEYDRArarifsgpsspnsedtltQVSTdmknigfnrdereivrnsitdaekiisirdgaglsrvaifrdrekdrtdpdydrsyerKFNFHLCSTILVFpnsvrsqglklpsvsglrqaql
Low Complexity Region (SEG)
MDsassataaaaIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYERKFNFHLCSTILVFPNSVRSQGLKLPSVSGLRQAQL
Disordered region (IsUnstruct)
*******************MVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTA***************************************************************************************************EIVRNSITDAEKIISIRDGAGLSRVAIFR************RSYERKFNFHLCSTILVFPNSV******************
Disordered Region (DISOPRED)
********************VDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQ**FEFQHFPTSYLRLAAHRVSQHYGLVTMVQE***EGLGNRILVRKTAESKYPAVRL************************************************************************************************************************************SYERKFNFHLCSTILVFPNSVRSQGLKLPS*********
Disordered Region (DISEMBL)
**********AAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVNGAN********************RARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYERKFNFHLCSTILVFPNSVRSQGL*************
Disordered Region (DISPRO)
******************SMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAK********EKI*************************************RARARIFSG***********************************************************KDRTDPDYDRSYERKFNFHLCSTILVFPNSVRS****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYERKFNFHLCSTILVFPNSVRSQGLKLPSVSGLRQAQL
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	282	2.2.26 [Sep-21-2011]
A0JNC2	989	R3H domain-containing pro	no	no	0.478	0.136	0.314	1e-10
Q80TM6	1044	R3H domain-containing pro	no	no	0.478	0.129	0.314	2e-10
Q15032	1099	R3H domain-containing pro	yes	no	0.485	0.124	0.337	3e-10
Q9DCB4	807	cAMP-regulated phosphopro	no	no	0.716	0.250	0.260	4e-10
Q9UBL0	812	cAMP-regulated phosphopro	no	no	0.489	0.169	0.284	1e-09
Q9Y2K5	976	R3H domain-containing pro	no	no	0.290	0.084	0.333	3e-07

>sp|A0JNC2|R3HD2_BOVIN R3H domain-containing protein 2 OS=Bos taurus GN=R3HDM2 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 86/159 (54%), Gaps = 24/159 (15%)

Query: 24  FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
           FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct: 157 FLVNTLKKNPRDRMMLLKLEQEILDFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query: 81  VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
                ++ ++  G  +++ KT+ ++ P  R SE      ++    E  +  I +R +A  
Sbjct: 214 -----DHNVDQTGKAVIINKTSNTRIPEQRFSE----HIKDEKNTEFQQRFILKRDDASM 264

Query: 141 VNGANETGTKRSPV------RSVEERKEEYDRARARIFS 173
               N+    R P+      +S+EER+EEY R R RIF+
Sbjct: 265 DRDDNQI---RVPLQDGRRSKSIEEREEEYQRVRERIFA 300

Bos taurus (taxid: 9913)

>sp|Q80TM6|R3HD2_MOUSE R3H domain-containing protein 2 OS=Mus musculus GN=R3hdm2 PE=2 SV=2

 Score = 66.2 bits (160), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 86/159 (54%), Gaps = 24/159 (15%)

Query: 24  FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
           FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct: 157 FLVNTLKKNPRDRMMLLKLEQEILDFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query: 81  VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
                ++ ++  G  +++ KT+ ++ P  R SE      ++    E  +  I +R +A  
Sbjct: 214 -----DHNVDQTGKAVIINKTSSTRIPEQRFSE----HIKDEKNTEFQQRFILKRDDASM 264

Query: 141 VNGANETGTKRSPV------RSVEERKEEYDRARARIFS 173
               N+    R P+      +S+EER+EEY R R RIF+
Sbjct: 265 DRDDNQM---RVPLQDGRRSKSIEEREEEYQRVRERIFA 300

Mus musculus (taxid: 10090)

>sp|Q15032|R3HD1_HUMAN R3H domain-containing protein 1 OS=Homo sapiens GN=R3HDM1 PE=1 SV=3

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 85/157 (54%), Gaps = 20/157 (12%)

Query: 24  FLVEALQN-PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVT 82
           FLV  L+N PR R+ +L++E +I  F+ N +    +F    TSY R+  HRV+ ++GL  
Sbjct: 156 FLVNTLKNNPRDRMMLLKLEQEILDFIGNNESPRKKFPPM-TSYHRMLLHRVAAYFGL-- 212

Query: 83  MVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKI-KIAIRRRPNAGCV 141
              ++ ++  G  ++V KT+ ++ P  + +E       + DK E   K  I +R N+   
Sbjct: 213 ---DHNVDQSGKSVIVNKTSNTRIPDQKFNE-----HIKDDKGEDFQKRYILKRDNSSFD 264

Query: 142 NGANET-----GTKRSPVRSVEERKEEYDRARARIFS 173
              N+        +RS  +S+EER+EEY RAR RIFS
Sbjct: 265 KDDNQMRIRLKDDRRS--KSIEEREEEYQRARDRIFS 299

Homo sapiens (taxid: 9606)

>sp|Q9DCB4|ARP21_MOUSE cAMP-regulated phosphoprotein 21 OS=Mus musculus GN=Arpp21 PE=1 SV=2

 Score = 65.5 bits (158), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 60/230 (26%), Positives = 117/230 (50%), Gaps = 28/230 (12%)

Query: 24  FLVEALQN-PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVT 82
           FL+  L+N  R R+ +L+ME ++  F+ + +  + +F    +SY R+  HRV+ ++GL  
Sbjct: 151 FLINTLKNNSRDRMILLKMEQEMIDFIADSNNHYKKFPQM-SSYQRMLVHRVAAYFGL-- 207

Query: 83  MVQENGIEGLGNRILVRKTAESKYPAVRLSE-IPAKQSEESDK---LEKIKIAIRRRPNA 138
              ++ ++  G  +++ KT+ ++ P  R  E +  ++SEES K   L++   +I +  N 
Sbjct: 208 ---DHNVDQTGKSVIINKTSSTRIPEQRFCEHLKDEKSEESQKRFILKRDNSSIDKEDNQ 264

Query: 139 GCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTL---TQVSTDMKNIG 195
             ++   +   +RS  +S+EER+EEY R R RIF+  S  + E      +++  DM    
Sbjct: 265 NRMHPFRDD--RRS--KSIEEREEEYQRVRERIFAHDSVCSQESLFLDNSRLQEDMHICN 320

Query: 196 FNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSY 245
               +R++ R          + RD +G +  +     E +   PD+ R++
Sbjct: 321 ETYKKRQLFR----------AHRDSSGRTSGSRQSSSETELRWPDHQRAW 360

Isoform 2 may act as a competitive inhibitor of calmodulin-dependent enzymes such as calcineurin in neurons.

Mus musculus (taxid: 10090)

>sp|Q9UBL0|ARP21_HUMAN cAMP-regulated phosphoprotein 21 OS=Homo sapiens GN=ARPP21 PE=1 SV=2

 Score = 63.9 bits (154), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 85/158 (53%), Gaps = 20/158 (12%)

Query: 24  FLVEALQN-PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVT 82
           FL+  L+N  R R+ +L+ME +I  F+ + +  + +F    +SY R+  HRV+ ++GL  
Sbjct: 152 FLINTLKNNSRDRMILLKMEQEIIDFIADNNNHYKKFPQM-SSYQRMLVHRVAAYFGL-- 208

Query: 83  MVQENGIEGLGNRILVRKTAESKYPAVRLSE-IPAKQSEESDKLEKIKIAIRRRPNAGCV 141
              ++ ++  G  +++ KT+ ++ P  R  E +  ++ EES K    +  ++R  +   +
Sbjct: 209 ---DHNVDQTGKSVIINKTSSTRIPEQRFCEHLKDEKGEESQK----RFILKR--DNSSI 259

Query: 142 NGANETGTKRSPVR------SVEERKEEYDRARARIFS 173
           +  +    +  P R      S+EER+EEY R R RIF+
Sbjct: 260 DKEDNQQNRMHPFRDDRRSKSIEEREEEYQRVRERIFA 297

Isoform 2 may act as a competitive inhibitor of calmodulin-dependent enzymes such as calcineurin in neurons.

Homo sapiens (taxid: 9606)

>sp|Q9Y2K5|R3HD2_HUMAN R3H domain-containing protein 2 OS=Homo sapiens GN=R3HDM2 PE=1 SV=3

 Score = 56.2 bits (134), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 56/93 (60%), Gaps = 11/93 (11%)

Query: 24  FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
           FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct: 157 FLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query: 81  VTMVQENGIEGLGNRILVRKTAESKYPAVRLSE 113
                ++ ++  G  +++ KT+ ++ P  R SE
Sbjct: 214 -----DHNVDQTGKAVIINKTSNTRIPEQRFSE 241

Homo sapiens (taxid: 9606)

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	282
224086775	354	predicted protein [Populus trichocarpa]	0.861	0.686	0.732	8e-99
224137642	354	predicted protein [Populus trichocarpa]	0.854	0.680	0.740	2e-98
225440145	356	PREDICTED: uncharacterized protein LOC10	0.872	0.691	0.736	3e-98
255561144	349	r3h domain containing protein, putative	0.822	0.664	0.730	4e-91
255552461	350	r3h domain containing protein, putative	0.932	0.751	0.655	9e-86
449437692	401	PREDICTED: uncharacterized protein LOC10	0.861	0.605	0.668	9e-84
449521539	354	PREDICTED: uncharacterized protein LOC10	0.861	0.686	0.668	1e-83
363814416	336	uncharacterized protein LOC100814835 [Gl	0.801	0.672	0.688	2e-83
356571894	355	PREDICTED: uncharacterized protein LOC10	0.868	0.690	0.635	3e-82
359806964	355	uncharacterized protein LOC100784326 [Gl	0.868	0.690	0.659	5e-82

>gi|224086775|ref|XP_002307959.1| predicted protein [Populus trichocarpa] gi|222853935|gb|EEE91482.1| predicted protein [Populus trichocarpa]

 Score =  366 bits (939), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 181/247 (73%), Positives = 207/247 (83%), Gaps = 4/247 (1%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           MDS +    AA  +NE+ESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQ FEFQ
Sbjct: 1   MDSTTQQAVAA--INEKESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQLFEFQ 58

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFPTSYLRLAAHRV+ HYGL+TMVQ+NGI+GLGN+ILV+KTA+S+YPAV L+ IPAKQ  
Sbjct: 59  HFPTSYLRLAAHRVAHHYGLITMVQDNGIDGLGNKILVQKTAQSRYPAVCLTAIPAKQL- 117

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           ESDK EKIK+AIR RPN G +N  N  G KR+PVRSVEERKE+YDRARARIFS PSSP +
Sbjct: 118 ESDKPEKIKLAIRPRPNKGSINDPNGFGVKRNPVRSVEERKEDYDRARARIFSSPSSPTA 177

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
           EDT+ ++ TD KN+  ++DE E  RNS+ D EK + IRD    SRVAIFRDREKDRTDPD
Sbjct: 178 EDTVPELPTDSKNLSSSKDENEESRNSVVDPEKNVFIRDSMS-SRVAIFRDREKDRTDPD 236

Query: 241 YDRSYER 247
           YDRSY+R
Sbjct: 237 YDRSYDR 243

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224137642|ref|XP_002322608.1| predicted protein [Populus trichocarpa] gi|222867238|gb|EEF04369.1| predicted protein [Populus trichocarpa]

 Score =  365 bits (936), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 180/243 (74%), Positives = 203/243 (83%), Gaps = 2/243 (0%)

Query: 5   SSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPT 64
           S+   A A +NE+ESM+DPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQ FEF HFPT
Sbjct: 3   STTPQAVAAINEKESMMDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQVFEFPHFPT 62

Query: 65  SYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDK 124
           SYLRLAAHRV+QHYGL+TMVQ+NGI+GL N+ILV+KTAE +YPAVRLSEIPAKQS  SD 
Sbjct: 63  SYLRLAAHRVAQHYGLITMVQDNGIDGLLNKILVQKTAECRYPAVRLSEIPAKQS-GSDT 121

Query: 125 LEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTL 184
            E IK+AIR RPN G +N  N  G KRSPVRSVEERKEEYDRARARIFS PSSP ++DT+
Sbjct: 122 PEMIKLAIRPRPNKGSINDPNGFGIKRSPVRSVEERKEEYDRARARIFSSPSSPTADDTV 181

Query: 185 TQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRS 244
            Q+ TD KN+  ++DE E  R S+ D EK + +RDG   SRVAIFRDREKDRTDPDYDRS
Sbjct: 182 PQLPTDSKNLSSSKDENEECRISVVDPEKNVFVRDGMS-SRVAIFRDREKDRTDPDYDRS 240

Query: 245 YER 247
           YER
Sbjct: 241 YER 243

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225440145|ref|XP_002283240.1| PREDICTED: uncharacterized protein LOC100251643 [Vitis vinifera] gi|147820324|emb|CAN73572.1| hypothetical protein VITISV_007445 [Vitis vinifera] gi|297741684|emb|CBI32816.3| unnamed protein product [Vitis vinifera]

 Score =  364 bits (934), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 182/247 (73%), Positives = 202/247 (81%), Gaps = 1/247 (0%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           MDSA  A   +A   ++ESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQ FEFQ
Sbjct: 1   MDSAPYANDVSATPGDKESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQQFEFQ 60

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFPTSYLRLAAHRV+ HYGL TMVQ+N ++GL NRI+V KTAES+ PA+ LSEIPAKQS 
Sbjct: 61  HFPTSYLRLAAHRVALHYGLQTMVQDNSVDGLANRIVVMKTAESRCPAICLSEIPAKQS- 119

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           E++K E IKIAIRRRPN   +N  NETG KRS VR+VEERKEEYD+ARARIFS P+SP+S
Sbjct: 120 ENEKPEHIKIAIRRRPNKTSLNETNETGIKRSSVRTVEERKEEYDKARARIFSTPASPDS 179

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
           +DTL Q   D KN+  N DE E  RNS+ D EK ISIRD    SRVAIFRDREKDRTDPD
Sbjct: 180 DDTLPQAPADGKNLCLNGDENEGCRNSMADPEKNISIRDSGTSSRVAIFRDREKDRTDPD 239

Query: 241 YDRSYER 247
           YDRSYER
Sbjct: 240 YDRSYER 246

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561144|ref|XP_002521584.1| r3h domain containing protein, putative [Ricinus communis] gi|223539262|gb|EEF40855.1| r3h domain containing protein, putative [Ricinus communis]

 Score =  340 bits (873), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 171/234 (73%), Positives = 192/234 (82%), Gaps = 2/234 (0%)

Query: 14  VNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHR 73
           + ++ESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNP QQ FEFQHFPTSYLRLAAHR
Sbjct: 7   ITDKESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPVQQQFEFQHFPTSYLRLAAHR 66

Query: 74  VSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIR 133
           V+QHYGL+TMVQ+N  +GL N+ILV+KTAE +YPAVRL EIPAKQ  ESDK E++KI IR
Sbjct: 67  VAQHYGLITMVQDNSFDGLVNKILVKKTAEIRYPAVRLCEIPAKQW-ESDKSEQVKIVIR 125

Query: 134 RRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKN 193
            RPN G  N  NE G K+ PVRSVEERKEEYDRARARIFS PSS N +D ++Q S D K+
Sbjct: 126 PRPNKGSTNEFNEFGVKQDPVRSVEERKEEYDRARARIFSSPSSTNLDDVVSQGSIDRKS 185

Query: 194 IGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYER 247
              ++DE E  R S  D EK I+ RDGA  SRVAIFRDREKDRTDPDYDRSY+R
Sbjct: 186 TNPSKDELENCRYSANDPEKNINPRDGAP-SRVAIFRDREKDRTDPDYDRSYDR 238

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552461|ref|XP_002517274.1| r3h domain containing protein, putative [Ricinus communis] gi|223543537|gb|EEF45067.1| r3h domain containing protein, putative [Ricinus communis]

 Score =  322 bits (826), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 175/267 (65%), Positives = 204/267 (76%), Gaps = 4/267 (1%)

Query: 8   TAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYL 67
           +A   ++NE+ESMVDPFLVEAL NP HRLTILRME DIQRFLQ PDQQ FEFQHFPTSYL
Sbjct: 3   SALNRVINEKESMVDPFLVEALHNPSHRLTILRMEHDIQRFLQIPDQQQFEFQHFPTSYL 62

Query: 68  RLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEK 127
           RLAAHRV+QHYGL+TMVQ+ G +GL N+ILV+KTAES+YPAV L EIPAKQ E  DK E+
Sbjct: 63  RLAAHRVAQHYGLITMVQDYGYDGLVNKILVKKTAESRYPAVCLCEIPAKQLER-DKPEQ 121

Query: 128 IKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQV 187
           +KI IR RPN G +N  NE G K+SPVRSVEERKEEYDRARARIFS P SP+S+D ++  
Sbjct: 122 VKIVIRPRPNKGSINECNEFGVKQSPVRSVEERKEEYDRARARIFSSPCSPSSDDIVSHA 181

Query: 188 STDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYER 247
           S D K+   + DE E  RNS +D EK I  RDGA   RVAIFRDREKDRTDPDYDRSY+R
Sbjct: 182 SIDGKSTSPSEDENEGCRNSASDPEKNIYPRDGAA-PRVAIFRDREKDRTDPDYDRSYDR 240

Query: 248 KFNFHLCSTILVFPNSVRSQGLKLPSV 274
             +        + P ++  Q ++LP V
Sbjct: 241 YRSLPFNQGFNMAPFNL--QKIQLPYV 265

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437692|ref|XP_004136625.1| PREDICTED: uncharacterized protein LOC101215817 [Cucumis sativus]

 Score =  315 bits (808), Expect = 9e-84,   Method: Compositional matrix adjust.
 Identities = 165/247 (66%), Positives = 195/247 (78%), Gaps = 4/247 (1%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           M+SAS         N++ESMVDPFLVEALQNPRHRLTILRMELDIQ+FL NPDQQ FEFQ
Sbjct: 48  MESASFDPTPQGF-NDKESMVDPFLVEALQNPRHRLTILRMELDIQKFLHNPDQQLFEFQ 106

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFPTSYLRLAAHRV+QHYGL TMVQ++GI+G GNRI+VRK AE++ P+VRLSEIPAKQ  
Sbjct: 107 HFPTSYLRLAAHRVAQHYGLQTMVQDSGIDGFGNRIVVRKMAENRLPSVRLSEIPAKQL- 165

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           +++K E++KI IR RPN      ANE G K+S VRSVEERKEEYDRARARIFS PSSP  
Sbjct: 166 DNEKHEQVKIVIRPRPNKMSGISANEGGHKQSSVRSVEERKEEYDRARARIFSSPSSPEI 225

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
           +DT++Q+ ++ K    NRDE E  R    + EK  + RDG   SRVAIF+DREKDR+DPD
Sbjct: 226 DDTISQIPSEGKYACSNRDETEGCRTLGGELEK-FNGRDGM-TSRVAIFKDREKDRSDPD 283

Query: 241 YDRSYER 247
           YDR+Y+R
Sbjct: 284 YDRNYDR 290

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449521539|ref|XP_004167787.1| PREDICTED: uncharacterized protein LOC101224356 [Cucumis sativus]

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 165/247 (66%), Positives = 195/247 (78%), Gaps = 4/247 (1%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           M+SAS         N++ESMVDPFLVEALQNPRHRLTILRMELDIQ+FL NPDQQ FEFQ
Sbjct: 1   MESASFDPTPQGF-NDKESMVDPFLVEALQNPRHRLTILRMELDIQKFLHNPDQQLFEFQ 59

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFPTSYLRLAAHRV+QHYGL TMVQ++GI+G GNRI+VRK AE++ P+VRLSEIPAKQ  
Sbjct: 60  HFPTSYLRLAAHRVAQHYGLQTMVQDSGIDGFGNRIVVRKMAENRLPSVRLSEIPAKQL- 118

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           +++K E++KI IR RPN      ANE G K+S VRSVEERKEEYDRARARIFS PSSP  
Sbjct: 119 DNEKHEQVKIVIRPRPNKMSGISANEGGHKQSSVRSVEERKEEYDRARARIFSSPSSPEI 178

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
           +DT++Q+ ++ K    NRDE E  R    + EK  + RDG   SRVAIF+DREKDR+DPD
Sbjct: 179 DDTISQIPSEGKYACSNRDETEGCRTLGGELEK-FNGRDGM-TSRVAIFKDREKDRSDPD 236

Query: 241 YDRSYER 247
           YDR+Y+R
Sbjct: 237 YDRNYDR 243

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814416|ref|NP_001242845.1| uncharacterized protein LOC100814835 [Glycine max] gi|255645243|gb|ACU23119.1| unknown [Glycine max]

 Score =  315 bits (806), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 157/228 (68%), Positives = 180/228 (78%), Gaps = 2/228 (0%)

Query: 20  MVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYG 79
           MVDPFLVEALQNPRHRLTILRMELDIQ+FL N DQQHFEFQHFP+SYLRLAAHRV+QHY 
Sbjct: 1   MVDPFLVEALQNPRHRLTILRMELDIQKFLDNADQQHFEFQHFPSSYLRLAAHRVAQHYN 60

Query: 80  LVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAG 139
           + TMVQ+NG++G G++ILVRK  ESKYP VRLSEIPAKQ  E+DK E  K  IR RPN  
Sbjct: 61  MQTMVQDNGLDGQGSKILVRKLPESKYPVVRLSEIPAKQL-ENDKSELKKFVIRPRPNRN 119

Query: 140 CVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRD 199
            +N AN  GTK +PVRSVEERKEEYDRARARIFS P S  S DT + V  D +N   ++D
Sbjct: 120 SLNDANGVGTKGNPVRSVEERKEEYDRARARIFSSPRSSESGDTSSMVPMDGRNSSTSKD 179

Query: 200 EREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYER 247
           E E  +N + D+E+ IS+RD    +RVAI RDREKDR+DPDYDRSY R
Sbjct: 180 ENETSKNPMADSERYISVRDSCS-TRVAILRDREKDRSDPDYDRSYGR 226

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571894|ref|XP_003554106.1| PREDICTED: uncharacterized protein LOC100796710 [Glycine max]

 Score =  310 bits (795), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 157/247 (63%), Positives = 187/247 (75%), Gaps = 2/247 (0%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           MDS   +  + +   ++ESMVDPFLVEALQNPRHRLTILRMEL+IQ+FL N DQ HFEF 
Sbjct: 1   MDSPCLSNDSVSGFKDKESMVDPFLVEALQNPRHRLTILRMELEIQKFLNNADQLHFEFH 60

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFP+SYLRLAAHRV+QHY + TMVQ+NG++G G++ILVRK  ESKYP VRLSEIPAKQ  
Sbjct: 61  HFPSSYLRLAAHRVAQHYNMQTMVQDNGLDGQGSKILVRKLPESKYPVVRLSEIPAKQL- 119

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           E+DK E+ KI IR RPN   +N AN  G K +P+RSVEERKEEYDRARARIFS P S  S
Sbjct: 120 ENDKSEQKKIVIRPRPNKNSLNDANGVGRKGNPLRSVEERKEEYDRARARIFSSPRSSES 179

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
            DT + V  D +    ++DE E  +N + D+E+ IS RD    +RVAI RDREKDR+DPD
Sbjct: 180 GDTSSVVPMDGRYSSTSKDENETSKNPMADSERYISTRDSCS-TRVAILRDREKDRSDPD 238

Query: 241 YDRSYER 247
           YDRSY R
Sbjct: 239 YDRSYGR 245

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806964|ref|NP_001241328.1| uncharacterized protein LOC100784326 [Glycine max] gi|255636099|gb|ACU18394.1| unknown [Glycine max]

 Score =  310 bits (793), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 163/247 (65%), Positives = 191/247 (77%), Gaps = 2/247 (0%)

Query: 1   MDSASSATAAAAIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
           MDS+       +   ++ESMVDPFLVEAL+NPRHR+TILRMELDIQRFL N D QHFEFQ
Sbjct: 1   MDSSCVPNGDVSGFKDKESMVDPFLVEALENPRHRVTILRMELDIQRFLSNADYQHFEFQ 60

Query: 61  HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
           HFP+SYLRLAAHRV+QHYG+ TMVQ+NG++G G RI+VRK AES+YP VRLSEIPAKQ  
Sbjct: 61  HFPSSYLRLAAHRVAQHYGMQTMVQDNGLDGQGTRIMVRKMAESRYPMVRLSEIPAKQL- 119

Query: 121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
           E+DK EKIKIAIR RPN   +N ANE G K +P RSVEERK EYDRARARIFS   S +S
Sbjct: 120 ENDKPEKIKIAIRPRPNKISLNEANEAGRKSNPPRSVEERKVEYDRARARIFSSSRSCDS 179

Query: 181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
           +DTL+Q STD KN   N+DE E  +  +  +E+    RD    +RVAI RDREKDR+DPD
Sbjct: 180 DDTLSQTSTDEKNSLINKDENETSKTPVVYSEQCSIGRD-INSTRVAILRDREKDRSDPD 238

Query: 241 YDRSYER 247
           YDR+YER
Sbjct: 239 YDRNYER 245

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	282
TAIR|locus:2103550	353	AT3G56680 [Arabidopsis thalian	0.804	0.643	0.599	5.5e-70
TAIR|locus:2103237	333	AT3G10770 [Arabidopsis thalian	0.812	0.687	0.620	4.4e-68
TAIR|locus:2175279	324	AT5G05100 [Arabidopsis thalian	0.829	0.722	0.578	4.7e-64
TAIR|locus:2058520	351	AT2G40960 [Arabidopsis thalian	0.939	0.754	0.498	1.2e-63
UNIPROTKB|H9L0H9	775	H9L0H9 "Uncharacterized protei	0.716	0.260	0.284	5.6e-15
UNIPROTKB|E1C2S9	1089	R3HDM1 "Uncharacterized protei	0.609	0.157	0.311	9.1e-15
UNIPROTKB|J9P3Q9	1059	R3HDM2 "Uncharacterized protei	0.723	0.192	0.273	1.8e-13
ZFIN|ZDB-GENE-030131-7119	1028	r3hdm1 "R3H domain containing	0.698	0.191	0.287	4.2e-13
MGI|MGI:1919000	1044	R3hdm2 "R3H domain containing	0.723	0.195	0.273	4.3e-13
UNIPROTKB|E9PTU7	1045	R3hdm2 "Protein R3hdm2" [Rattu	0.723	0.195	0.273	4.3e-13

TAIR|locus:2103550 AT3G56680 [Arabidopsis thaliana (taxid:3702)]

 Score = 709 (254.6 bits), Expect = 5.5e-70, P = 5.5e-70
 Identities = 136/227 (59%), Positives = 171/227 (75%)

Query:    21 VDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGL 80
             VDPFLVEAL N RHRLTILRMELD+QR LQNP+QQ FEFQHFPTSYLRLAAHRV+ HYGL
Sbjct:    24 VDPFLVEALHNSRHRLTILRMELDVQRLLQNPEQQQFEFQHFPTSYLRLAAHRVANHYGL 83

Query:    81 VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
              T VQE+G +G  NRILV KT ESK+PAVRLSEIP  +  E+ K E  K++I+ RP+ G 
Sbjct:    84 ATAVQESGADGNENRILVTKTTESKFPAVRLSEIPVAKQSENGKFESRKVSIKTRPSKGS 143

Query:   141 VNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDE 200
               GA +    R P+RSVEERKEEYD+AR RIFSG +  + +D+ ++     +N   +RD+
Sbjct:   144 GYGAGDLEKNRGPLRSVEERKEEYDKARERIFSGLTGLSCDDSSSETQVYERNASLSRDD 203

Query:   201 REIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYER 247
             +++ +N+  + +K +SIR+    SRVAIFRDREKDR DPDYDR ++R
Sbjct:   204 KQVSKNAYVEVKKNLSIRESGPTSRVAIFRDREKDRFDPDYDRRHQR 250

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

TAIR|locus:2103237 AT3G10770 [Arabidopsis thaliana (taxid:3702)]

 Score = 691 (248.3 bits), Expect = 4.4e-68, P = 4.4e-68
 Identities = 149/240 (62%), Positives = 177/240 (73%)

Query:    14 VNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHR 73
             + E+E+MVDPFLVEALQNPRHRLTILRMELDIQ+F QNP+Q  FEF  FPTSYLRLAAHR
Sbjct:     4 MTEKEAMVDPFLVEALQNPRHRLTILRMELDIQKFFQNPEQLQFEFPPFPTSYLRLAAHR 63

Query:    74 VSQHYGLVTMVQENGI---EGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKI 130
             V+QHYGLVTM  +NG    +G  NRILV KTAES++P V LSEIP KQ E   + E  KI
Sbjct:    64 VAQHYGLVTMALDNGTGAGDGSDNRILVTKTAESRFPYVCLSEIPVKQPENG-RPEGFKI 122

Query:   131 AIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDT--LTQVS 188
             AI+ RP  G   G + +G +++ +RSVEERKEEYD+ARARIF+ PSS +SED+  L   S
Sbjct:   123 AIKPRPKRGSGCGGSGSGVQQNLLRSVEERKEEYDKARARIFNSPSSSDSEDSSSLRPPS 182

Query:   189 TDMKNIGFNRDEREI-VRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDYDRSYER 247
              +++N   NR+E E+ V NS  DA      RD    SRVAI RDREKDR DPDYDRSY+R
Sbjct:   183 LEVRNTCINRNETEVAVNNSPVDAVT----RDSGRTSRVAIIRDREKDRYDPDYDRSYDR 238

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2175279 AT5G05100 [Arabidopsis thaliana (taxid:3702)]

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 143/247 (57%), Positives = 175/247 (70%)

Query:    14 VNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHR 73
             ++++E+MVDPFLVEALQNPRHRLTILRMELDIQ+F Q+P+QQ +EFQ  PTSYLRL AHR
Sbjct:     4 MSDKEAMVDPFLVEALQNPRHRLTILRMELDIQKFFQSPEQQQYEFQPLPTSYLRLIAHR 63

Query:    74 VSQHYGLVTMVQENG-IEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAI 132
             V+QHYGL T   E G ++G GNRIL  KT ES+YP V LSEIP KQ E   + E  KIAI
Sbjct:    64 VAQHYGLFTTALEGGGVDGSGNRILATKTVESRYPYVCLSEIPVKQPEIHGRPEGFKIAI 123

Query:   133 RRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVST--- 189
             + RPN G     + +G +++ +RSVEERKEEYD+ARARIF+ PSS +SED+ T+      
Sbjct:   124 KPRPNRGAGGSGSGSGVEKNLLRSVEERKEEYDKARARIFNSPSSSDSEDSSTRAPPPPY 183

Query:   190 ---DMK-NIGF-NRDEREIVRN---SITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDY 241
                D K N    +R+E E+V N   +  D E+   IRD    SRVAI RDREKDR DPDY
Sbjct:   184 PRLDSKHNTACPSRNETEVVVNYNSNPVDVERNGVIRDSGRTSRVAIIRDREKDRYDPDY 243

Query:   242 DRS-YER 247
             DR+ Y R
Sbjct:   244 DRNRYVR 250

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2058520 AT2G40960 [Arabidopsis thaliana (taxid:3702)]

 Score = 649 (233.5 bits), Expect = 1.2e-63, P = 1.2e-63
 Identities = 134/269 (49%), Positives = 181/269 (67%)

Query:     1 MDXXXXXXXXXXIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQ 60
             MD          ++ ++   VDPFLVEALQNPRHRLTILRMELD+QRFLQ+PDQQ FEFQ
Sbjct:     1 MDTALTSESGCAVIADKGFNVDPFLVEALQNPRHRLTILRMELDVQRFLQSPDQQQFEFQ 60

Query:    61 HFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSE 120
             HFPTSYLR AAHRV+ HYGL+T V++ G +G  +RI+V K+++S++PA RLSEIP KQSE
Sbjct:    61 HFPTSYLRFAAHRVANHYGLITSVRDGGADGNESRIVVTKSSDSRFPAARLSEIPVKQSE 120

Query:   121 ESDKLEKIKIAIRRRPNAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNS 180
              + K E +K+ I+ RP  G  +G      K   ++SVEERKE+YDRARARIF+G  + + 
Sbjct:   121 -TGKFEHMKVVIKPRPTKG--SGMEGDELKGGLLKSVEERKEDYDRARARIFNGLVNIDC 177

Query:   181 EDTLTQVSTDMKNIGFNRDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
              D+ ++ +    N   +RDE ++++N   +A+K    R     SR+AI RDREKDR DPD
Sbjct:   178 NDSSSETNPWRVNCSSSRDENQVLKNGNIEADKNNISRKSNPASRIAILRDREKDRYDPD 237

Query:   241 YDRS-YERKFNFHLCSTILVFPNSVRSQG 268
             YDRS Y    N  +   + V   ++++ G
Sbjct:   238 YDRSNYRYISNLPVDQNLCVAHFNIQTMG 266

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|H9L0H9 H9L0H9 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 201 (75.8 bits), Expect = 5.6e-15, P = 5.6e-15
 Identities = 64/225 (28%), Positives = 118/225 (52%)

Query:    24 FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
             FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct:   158 FLVNTLKKNPRDRMMLLKLEQEILEFISDSNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 214

Query:    81 VTMVQENGIEGLGNRILVRKTAESKYPAVRLSE-IPAKQSEESDK---LEKIKIAIRRRP 136
                  ++ ++  G  +++ KT+ ++ P  R SE I  +++ E  +   L++   ++ R  
Sbjct:   215 -----DHNVDQTGKAVIINKTSNTRIPEQRFSEHIKDEKNAEFPQRFILKRDDTSMDRDD 269

Query:   137 NAGCVNGANETGTKRSPVRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGF 196
             N   +    + G +RS  +S+EER+EEY RAR RIF+  +  N   T +++S +  +  +
Sbjct:   270 NQ--IRLPLQDG-RRS--KSIEEREEEYQRARERIFARETGQNGYLTDSRMSKE--SFAY 322

Query:   197 N-RDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
             + +  R+I R +     +    R  +  S +     R    TD D
Sbjct:   323 SPQKRRQIFRANRDGLSRASGSRQSSTESEIKSLEPRPWSSTDSD 367

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E1C2S9 R3HDM1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 201 (75.8 bits), Expect = 9.1e-15, P = 9.1e-15
 Identities = 58/186 (31%), Positives = 95/186 (51%)

Query:    24 FLVEALQN-PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVT 82
             FLV  L+N PR R+ +L++E +I  F+ N +    +F    TSY R+  HRV+ ++GL  
Sbjct:   156 FLVNTLKNNPRDRMMLLKLEQEILDFIGNNEAPRKKFPPM-TSYHRMLLHRVAAYFGL-- 212

Query:    83 MVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVN 142
                E+ ++  G  ++V KT+ ++ P  +  E    + E+SD  +K  I   +R N+    
Sbjct:   213 ---EHNVDQSGKSVIVNKTSNTRIPDQKFCE--HIKDEKSDDFQKRYIL--KRDNSSLDK 265

Query:   143 GANETGTKRSPVR---SVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRD 199
               N+   +    R   S+EER+EEY RAR RIF+  S  + E+  T      +     + 
Sbjct:   266 DDNQMRIRLKDDRRSKSIEEREEEYQRARERIFAQDSLCSQENYFTDKRIQEEETNSTQQ 325

Query:   200 EREIVR 205
              R+I R
Sbjct:   326 RRQIFR 331

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|J9P3Q9 R3HDM2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 196 (74.1 bits), Expect = 1.8e-13, P = 1.8e-13
 Identities = 61/223 (27%), Positives = 109/223 (48%)

Query:    24 FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
             FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct:   157 FLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query:    81 VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
                  ++ ++  G  +++ KT+ ++ P  R SE   K  + ++  ++    I +R +A  
Sbjct:   214 -----DHNVDQTGKAVIINKTSNTRIPEQRFSE-HIKDEKNTEFQQRF---ILKRDDASM 264

Query:   141 VNGANETGTKRSPVR---SVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFN 197
                 N+        R   S+EER+EEY R R RIF+  +  N      ++S +  +   +
Sbjct:   265 DRDDNQIRVPLQDGRRSKSIEEREEEYQRVRERIFARETGQNGYLNDIRLSKEAFSSSSH 324

Query:   198 RDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
             +  R+I R +     +  S R  +  S +     R    TD D
Sbjct:   325 K-RRQIFRGNREGPSRTSSSRQSSTDSELKSLEPRPWSSTDSD 366

GO:0003676 "nucleic acid binding" evidence=IEA

ZFIN|ZDB-GENE-030131-7119 r3hdm1 "R3H domain containing 1" [Danio rerio (taxid:7955)]

 Score = 194 (73.4 bits), Expect = 4.2e-13, P = 4.2e-13
 Identities = 63/219 (28%), Positives = 114/219 (52%)

Query:    24 FLVEALQN-PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVT 82
             FLV  L+N PR R+ +L++E DI  F+ N + Q  +F    TSY R+  HRV+ ++GL  
Sbjct:    97 FLVNTLKNNPRDRMMLLKLEQDILDFISNIESQKRKFPPM-TSYHRMLLHRVAAYFGL-- 153

Query:    83 MVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVN 142
                ++ ++  G  +++ KT+ ++ P  + SE    + +++D  +K  I  R   +    +
Sbjct:   154 ---DHNVDQTGKSVIINKTSNTRIPDQKFSE--HIKDDKTDDFQKRYILKRDNSSLDQDD 208

Query:   143 GANETGTKRSP-VRSVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFNRDER 201
             G      K     +S+EER+EEY RAR RIF+       +D   ++   +  + F+R + 
Sbjct:   209 GRLRMRLKDDRRSKSIEEREEEYQRARDRIFA-------QDV--RLFNKIHFV-FSRIQE 258

Query:   202 EIVRNSITDAEKIISIRDG-AGLSRVAIFRDREKDRTDP 239
             ++   +     +I  +RDG +G SR +   + +K  +DP
Sbjct:   259 DMTFINTQQRRQIFRLRDGRSGNSRQSSSENEQK-YSDP 296

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:1919000 R3hdm2 "R3H domain containing 2" [Mus musculus (taxid:10090)]

 Score = 194 (73.4 bits), Expect = 4.3e-13, P = 4.3e-13
 Identities = 61/223 (27%), Positives = 109/223 (48%)

Query:    24 FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
             FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct:   157 FLVNTLKKNPRDRMMLLKLEQEILDFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query:    81 VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
                  ++ ++  G  +++ KT+ ++ P  R SE   K  + ++  ++    I +R +A  
Sbjct:   214 -----DHNVDQTGKAVIINKTSSTRIPEQRFSE-HIKDEKNTEFQQRF---ILKRDDASM 264

Query:   141 VNGANETGTKRSPVR---SVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFN 197
                 N+        R   S+EER+EEY R R RIF+  +  N      ++S +  +   +
Sbjct:   265 DRDDNQMRVPLQDGRRSKSIEEREEEYQRVRERIFARETGQNGYLNDIRLSKEAFSSSSH 324

Query:   198 RDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
             +  R+I R +     +  S R  +  S +     R    TD D
Sbjct:   325 K-RRQIFRGNREGLSRTSSSRQSSTDSELKSLEPRPWSSTDSD 366

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|E9PTU7 R3hdm2 "Protein R3hdm2" [Rattus norvegicus (taxid:10116)]

 Score = 194 (73.4 bits), Expect = 4.3e-13, P = 4.3e-13
 Identities = 61/223 (27%), Positives = 109/223 (48%)

Query:    24 FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
             FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct:   157 FLVNTLKKNPRDRMMLLKLEQEILDFISDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 213

Query:    81 VTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGC 140
                  ++ ++  G  +++ KT+ ++ P  R SE   K  + ++  ++    I +R +A  
Sbjct:   214 -----DHNVDQTGKAVIINKTSSTRIPEQRFSE-HIKDEKNTEFQQRF---ILKRDDASM 264

Query:   141 VNGANETGTKRSPVR---SVEERKEEYDRARARIFSGPSSPNSEDTLTQVSTDMKNIGFN 197
                 N+        R   S+EER+EEY R R RIF+  +  N      ++S +  +   +
Sbjct:   265 DREENQMRVPLQDGRRSKSIEEREEEYQRVRERIFAREAGQNGYLNDIRLSKEAFSSSSH 324

Query:   198 RDEREIVRNSITDAEKIISIRDGAGLSRVAIFRDREKDRTDPD 240
             +  R+I R +     +  S R  +  S +     R    TD D
Sbjct:   325 K-RRQIFRGNREGLSRTSSSRQSSTDSELKSLEPRPWSSTDSD 366

GO:0003676 "nucleic acid binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	282
cd02642	63	cd02642, R3H_encore_like, R3H domain of encore-lik	9e-18
pfam12752	57	pfam12752, SUZ, SUZ domain	1e-10
smart00393	79	smart00393, R3H, Putative single-stranded nucleic	5e-05
cd02325	59	cd02325, R3H, R3H domain	1e-04

>gnl|CDD|100071 cd02642, R3H_encore_like, R3H domain of encore-like and DIP1-like proteins

 Score = 74.9 bits (185), Expect = 9e-18
 Identities = 26/68 (38%), Positives = 39/68 (57%), Gaps = 5/68 (7%)

Query: 34  HRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLG 93
            RL +L++E D+  F+++  +Q  E      SY RL AHRV+Q+YGL   V  +G    G
Sbjct: 1   DRLFVLKLEKDLLAFIKDSTRQSLELPP-MNSYYRLLAHRVAQYYGLDHNVDNSG----G 55

Query: 94  NRILVRKT 101
             ++V KT
Sbjct: 56  KCVIVNKT 63

Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Length = 63

>gnl|CDD|221752 pfam12752, SUZ, SUZ domain

 Score = 55.8 bits (135), Expect = 1e-10
 Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 126 EKIKIAIRRRPNAGCVNG------ANETGTKRSPVRSVEERKEEYDRARARIFSGPS 176
           EK K+ I +RP+ G            + G K    +S+EER+ EY  AR RIF   S
Sbjct: 1   EKPKMKILKRPSKGGSESGSSGSSPGDKGAKDRKAKSLEEREAEYAEARERIFGSSS 57

The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterized in the C.elegans protein Szy-20 where it has been shown to bind RNA and allow their localization to the centrosome. Warning- the domain has a compositionally biased character. Length = 57

>gnl|CDD|214647 smart00393, R3H, Putative single-stranded nucleic acids-binding domain

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 3/61 (4%)

Query: 21 VDPFLVEAL-QNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYG 79
            P  ++AL   PR R  ++ +EL+I RF     ++  E      SY R   H +++ YG
Sbjct: 3  FLPVTLDALSYRPRRREELIELELEIARF-VKSTKESVELPP-MNSYERKIVHELAEKYG 60

Query: 80 L 80
          L
Sbjct: 61 L 61

Length = 79

>gnl|CDD|100064 cd02325, R3H, R3H domain

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 13/63 (20%), Positives = 28/63 (44%), Gaps = 4/63 (6%)

Query: 38  ILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRIL 97
               E +++ F ++   +  E      SY R   H ++++YGL +  +  G      R++
Sbjct: 1   REEREEELEAFAKDAAGKSLELPP-MNSYERKLIHDLAEYYGLKSESEGEGPN---RRVV 56

Query: 98  VRK 100
           + K
Sbjct: 57  ITK 59

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Length = 59

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	282
KOG2953	432	consensus mRNA-binding protein Encore [RNA process	100.0
cd02642	63	R3H_encore_like R3H domain of encore-like and DIP1	99.84
PF12752	59	SUZ: SUZ domain; InterPro: IPR024771 The SUZ domai	99.5
PF01424	63	R3H: R3H domain; InterPro: IPR001374 The R3H motif	99.36
cd02325	59	R3H R3H domain. The name of the R3H domain comes f	99.26
smart00393	79	R3H Putative single-stranded nucleic acids-binding	99.2
cd06006	59	R3H_unknown_2 R3H domain of a group of fungal prot	99.04
cd02641	60	R3H_Smubp-2_like R3H domain of Smubp-2_like protei	99.03
cd02646	58	R3H_G-patch R3H domain of a group of fungal and pl	99.01
cd06007	59	R3H_DEXH_helicase R3H domain of a group of protein	98.66
cd02636	61	R3H_sperm-antigen R3H domain of a group of metazoa	98.66
cd02640	60	R3H_NRF R3H domain of the NF-kappaB-repression fac	98.66
cd02643	74	R3H_NF-X1 R3H domain of the X1 box binding protein	98.62
cd02644	67	R3H_jag R3H domain found in proteins homologous to	97.47
cd02639	60	R3H_RRM R3H domain of mainly fungal proteins which	97.21
cd02645	60	R3H_AAA R3H domain of a group of proteins with unk	96.8
cd02638	62	R3H_unknown_1 R3H domain of a group of eukaryotic	95.55
cd02637	65	R3H_PARN R3H domain of Poly(A)-specific ribonuclea	91.46

>KOG2953 consensus mRNA-binding protein Encore [RNA processing and modification]

Probab=100.00  E-value=5.4e-35  Score=283.04  Aligned_cols=256  Identities=45%  Similarity=0.596  Sum_probs=221.6

Q ss_pred             hhhccCCCCchHHHHHHhcCchhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeecc---C
Q 023439           12 AIVNERESMVDPFLVEALQNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQEN---G   88 (282)
Q Consensus        12 ~~~~~~~~~vd~~L~eAL~npkDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~---~   88 (282)
                      +.+-.....+|.|++|||+||+.|++|+++|.+|.+|+++...++++|+++|+||+|++.||+|++|+|.+.+.+.   +
T Consensus        87 ~~~~p~e~~~dy~~ve~~qnpR~~~~lsR~El~~~~~~Q~~~~qqt~~q~~~ts~~~~~~~rvaq~y~l~T~~~p~~~~~  166 (432)
T KOG2953|consen   87 ANKIPNEQAVDYFLVEALQNPRHRLTLSRKELDIQCQFQGPVQQQTEFQNYPTSYLRLAAHRVAQHYGLATTGEPSYISG  166 (432)
T ss_pred             cccCchhhcccHHHHhhhhcchhhhhhhcccchhhhhhcCcccccccCCCccccchhhhhcccccccccccccccccccc
Confidence            4456678889999999999999999999999999999999999999999999999999999999999999998776   5


Q ss_pred             ccCCcceEEEEecCCCCCCcccccccccCCcCcCchhhhhhhheeeCCCCCCCCC-CCCCCCCCCCCCCHHHHHHHHHHH
Q 023439           89 IEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAGCVNG-ANETGTKRSPVRSVEERKEEYDRA  167 (282)
Q Consensus        89 ~dgsg~~Ivv~KT~~triP~vrLsdl~~~~~~~~~~~~~~k~~ImrR~~k~s~~~-~s~~~~k~~~~kS~EEREeeY~rA  167 (282)
                      .++...+++++|+.+++.|.+++++++.+.+.+++.++..|+.|..|+.++++.. .++.+.......|+|||+++|..|
T Consensus       167 ~~p~eqR~l~~k~~~s~~P~~~~~~~P~ssp~~~~~~~~~~~~~sp~p~~g~G~~~~~p~~~~~~~~~S~~~~kq~yd~~  246 (432)
T KOG2953|consen  167 IDPYEQRILVTKTGESRFPGVSLSEIPVSSPSSNGWSEQRKGDISPRPTSGGGVSLSSPSNPQVTLLRSVEERKQEYDKA  246 (432)
T ss_pred             cCchhccccccccccccCCchhhccccccCccccccccccccccCCCCCCCCcccccCCcCCCccccccchhhhhhhhhh
Confidence            7888899999999999999999999999876667888888999999997765443 233344445788999999999999


Q ss_pred             HHhhcCCCCCCCCCCCcCcccCC---CCC--CCCChhhHHHhhh-chhhhhhhcccCCCCCCCceEEecCcccCCCCCCc
Q 023439          168 RARIFSGPSSPNSEDTLTQVSTD---MKN--IGFNRDEREIVRN-SITDAEKIISIRDGAGLSRVAIFRDREKDRTDPDY  241 (282)
Q Consensus       168 ReRIF~~~~~~d~~~~~~~~~~~---~~~--~~~~r~~~~~~~~-~~~~~ek~~~~r~~~~~~rvai~rdre~dr~dPDy  241 (282)
                      |+|||+.....++.|++...++.   ..+  ++++|.+.+.+.| ++..-+++++.|+.|+.+||||+||||+||+||||
T Consensus       247 r~r~g~~~~~~~s~Dss~q~~p~~~~~~~g~~~~~~~~~p~~~N~~Pv~~~~~g~~~~~gps~~v~~nr~rr~~ry~p~~  326 (432)
T KOG2953|consen  247 RGRIGSKPVTNDSKDSSSQQPPQNYQSGNGDPRLSRLEQPVSYNSPPLMHGPNGITRESGPSPRVAGNRDRRPDRYDPDY  326 (432)
T ss_pred             hccccCccccccCcccccccCCccccCCCCccccccCCcccccCCCcccccCCCcccCCCCCcccccccccchhhcCccc
Confidence            99999999999999999887765   444  5699999999888 78899999999999999999999999999999999


Q ss_pred             hhh--hhhhh--------------cccccceeEeeccccccc
Q 023439          242 DRS--YERKF--------------NFHLCSTILVFPNSVRSQ  267 (282)
Q Consensus       242 dr~--y~ry~--------------~~~~~~~~~~~~~~~~~~  267 (282)
                      ||+  .-||+              |.|.-..-.+||+--+.+
T Consensus       327 dr~~~~~~yv~~~Pp~q~~~~~~~ql~~~~~~i~~~~~pq~~  368 (432)
T KOG2953|consen  327 DRSCGFVRYVTMLPPGQTFMQYQKQLHTPYHKIPFPNDPQGN  368 (432)
T ss_pred             ccCCCCcceeccCCCcccccccccccCCcccccccCCCCcCC
Confidence            999  44554              245555566777776654

>cd02642 R3H_encore_like R3H domain of encore-like and DIP1-like proteins

Probab=99.84  E-value=3e-21  Score=143.47  Aligned_cols=63  Identities=41%  Similarity=0.711  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEec
Q 023439           34 HRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        34 DRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      ||++||+||++|++||+++..+.++|||| |||+|||+|+||+||||.|++++.+    +.+|+|+||
T Consensus         1 dr~~~l~~E~~i~~Fi~~~~~~~~~f~pm-~sy~RllvH~la~~~gL~s~s~~~~----~r~vvv~kt   63 (63)
T cd02642           1 DRLFVLKLEKDLLAFIKDSTRQSLELPPM-NSYYRLLAHRVAQYYGLDHNVDNSG----GKCVIVNKT   63 (63)
T ss_pred             CchHHHHHHHHHHHHHhCCCCCeeEcCCC-CcHHHHHHHHHHHHhCCeeEeecCC----ceEEEEEeC
Confidence            79999999999999999997788999999 9999999999999999999997743    589999987

Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>PF12752 SUZ: SUZ domain; InterPro: IPR024771 The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids

Probab=99.50  E-value=2e-14  Score=105.99  Aligned_cols=50  Identities=42%  Similarity=0.677  Sum_probs=37.8

Q ss_pred             hhhhheeeCCCCCCCCC--------CCCCCCCCCCCCCHHHHHHHHHHHHHhhcCCCC
Q 023439          127 KIKIAIRRRPNAGCVNG--------ANETGTKRSPVRSVEERKEEYDRARARIFSGPS  176 (282)
Q Consensus       127 ~~k~~ImrR~~k~s~~~--------~s~~~~k~~~~kS~EEREeeY~rAReRIF~~~~  176 (282)
                      .++++||||+.+++...        ....+.+....+|+||||++|++||+|||++++
T Consensus         2 ~p~~~IlkRp~~~~~~~~~~~~~~~~~~~~~~~~~~kSlEERE~eY~~AR~RIFg~~~   59 (59)
T PF12752_consen    2 KPKRKILKRPSKGSSSSDSGSSGSSPNSSSRKKRPSKSLEEREAEYAEARARIFGSSE   59 (59)
T ss_pred             CCCCeEecCCCCCCCcccccccccCCCcccccccccCCHHHHHHHHHHHHHHHhCCCC
Confidence            35899999987554322        112234568899999999999999999999864

It was first characterised in the Caenorhabditis elegans protein SZY-20 where it has been shown to bind RNA and allow their localization to the centrosome [].

>PF01424 R3H: R3H domain; InterPro: IPR001374 The R3H motif: a domain that binds single-stranded nucleic acids

Probab=99.36  E-value=1.3e-12  Score=95.59  Aligned_cols=63  Identities=25%  Similarity=0.471  Sum_probs=52.8

Q ss_pred             hHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEec
Q 023439           34 HRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        34 DRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      .|..|+++++++++|+.++.. .+.|+|| |+|+|+++|.+|+||||.|.+.+.+   ...+|+|+||
T Consensus         1 r~~~l~~~~~~~~~~~~~~~~-~~~f~pm-~~~~R~~iH~~a~~~gL~s~S~g~~---~~R~vvv~k~   63 (63)
T PF01424_consen    1 RREELEKIEEKLIEFFLSSGE-SLEFPPM-NSFERKLIHELAEYYGLKSKSEGEG---PNRRVVVSKT   63 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSS-EEEEEC---SHHHHHHHHHHHHCTEEEEEESSS---SSSEEEEEES
T ss_pred             ChHHHHHHHHHHHHHHHcCCC-EEEECCC-CHHHHHHHHHHHHHCCCEEEEecCC---CCeEEEEEeC
Confidence            367899999999999976654 8999999 9999999999999999999997744   3468999986

The most prominent feature of the R3H motif is the presence of an invariant arginine residue and a highly conserved histidine residue that are separated by three residues. The motif also displays a conserved pattern of hydrophobic residues, prolines and glycines. The R3H motif is present in proteins from a diverse range of organisms that includes Eubacteria, green plants, fungi and various groups of metazoans. Intriguingly, it has not yet been identified in Archaea and Escherichia coli. The sequences that contain the R3H domain, many of which are hypothetical proteins predicted from genome sequencing projects, can be grouped into eight families on the basis of similarities outside the R3H region. Three of the families contain ATPase domains either upstream (families II and VII) or downstream of the R3H domain (family VIII). The N-terminal part of members of family VII contains an SF1 helicase domain5. The C-terminal part of family VIII contains an SF2 DEAH helicase domain5. The ATPase domain in the members of family II is similar to the stage-III sporulation protein AA (S3AA_BACSU), the proteasome ATPase, bacterial transcription-termination factor r and the mitochondrial F1-ATPase b subunit (the F5 helicase family5). Family VI contains Cys-rich repeats6, as well as a ring-type zinc finger upstream of the R3H domain. JAG bacterial proteins (family I) contain a KH domain N-terminal to the R3H domain. The functions of other domains in R3H proteins support the notion that the R3H domain might be involved in interactions with single-stranded nucleic acids [].; GO: 0003676 nucleic acid binding; PDB: 1WHR_A 1MSZ_A 1UG8_A 3GKU_B 2CPM_A.

>cd02325 R3H R3H domain

Probab=99.26  E-value=1.1e-11  Score=86.53  Aligned_cols=59  Identities=22%  Similarity=0.412  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           38 ILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        38 lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      +.++|+.|.+|+.+.....++|+|| |+|+|+++|++|++|||.+...+.+   ....|+|++
T Consensus         1 ~~~~~~~l~~f~~~~~~~~~~~~p~-~~~~R~~vH~la~~~~L~s~s~g~~---~~r~v~i~~   59 (59)
T cd02325           1 REEREEELEAFAKDAAGKSLELPPM-NSYERKLIHDLAEYYGLKSESEGEG---PNRRVVITK   59 (59)
T ss_pred             ChHHHHHHHHHHHhhcCCeEEcCCC-CHHHHHHHHHHHHHCCCEEEEecCC---CCcEEEEeC
Confidence            4689999999999996688999999 9999999999999999999996644   335677653

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>smart00393 R3H Putative single-stranded nucleic acids-binding domain

Probab=99.20  E-value=1.6e-11  Score=94.21  Aligned_cols=74  Identities=30%  Similarity=0.596  Sum_probs=63.1

Q ss_pred             HHHHHHhc-CchhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEec
Q 023439           23 PFLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        23 ~~L~eAL~-npkDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      +++++.+. +++.+.+|++++.++.+|+.... ..+.|||| |+|+|.++|++|++|||.|...+.++   ..+|+|+++
T Consensus         5 ~~~~d~~~~~~~~~~~l~~~~~~~~~~v~~~~-~~~~~~pm-~~~~R~~iH~~a~~~~l~s~S~g~g~---~R~vvv~~~   79 (79)
T smart00393        5 PVTLDALSYRPRRREELIELELEIARFVKSTK-ESVELPPM-NSYERKIVHELAEKYGLESESFGEGP---KRRVVISKK   79 (79)
T ss_pred             eEEEECCccCHHHHHHHHHHHHHHHHHHhccC-CeEEcCCC-CHHHHHHHHHHHHHcCCEEEEEcCCC---CcEEEEEeC
Confidence            34455664 88999999999999999998775 56999999 99999999999999999999987553   367888864

>cd06006 R3H_unknown_2 R3H domain of a group of fungal proteins with unknown function

Probab=99.04  E-value=5.5e-10  Score=83.02  Aligned_cols=57  Identities=21%  Similarity=0.463  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           40 RMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        40 rlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      ++|+.|.+||++.....+.|||| |+++|-+||-||++|||.++..|.+++   .+|+|.|
T Consensus         3 ~~E~~l~~fv~d~~~~~~~f~pM-~~~~R~~vHdla~~~gl~SeS~d~Ep~---R~V~v~k   59 (59)
T cd06006           3 QIESTLRKFINDKSKRSLRFPPM-RSPQRAFIHELAKDYGLYSESQDPEPK---RSVFVKK   59 (59)
T ss_pred             hHHHHHHHHHhCCCCCceeCCCC-CHHHHHHHHHHHHHcCCeeEecCCCCC---cEEEEeC
Confidence            78999999999987778999999 999999999999999999999886654   4687765

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins

Probab=99.03  E-value=5.2e-10  Score=82.93  Aligned_cols=58  Identities=24%  Similarity=0.411  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhcCCCccccccCC-CCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           39 LRMELDIQRFLQNPDQQHFEFQH-FPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        39 LrlE~di~~FI~d~~~~~lel~p-mpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      .++|+.|.+|++++....++||| | |+++|.+||.||+.|||.|...+.+   ....|+|.|
T Consensus         2 ~~~~~~i~~F~~~~~~~~l~F~p~l-s~~eR~~vH~lA~~~gL~s~S~G~g---~~R~v~v~k   60 (60)
T cd02641           2 KHLKAMVKAFMKDPKATELEFPPTL-SSHDRLLVHELAEELGLRHESTGEG---SDRVITVSK   60 (60)
T ss_pred             hhHHHHHHHHHcCCCcCcEECCCCC-CHHHHHHHHHHHHHcCCceEeeCCC---CceEEEeeC
Confidence            46899999999999878899999 9 9999999999999999999997754   334666654

Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.

>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain

Probab=99.01  E-value=5.8e-10  Score=81.69  Aligned_cols=57  Identities=19%  Similarity=0.322  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           39 LRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        39 LrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      -.++++|.+|+.++ ...+.|||| ++++|.+||+||+.|||.+...+.|   ....|+|+|
T Consensus         2 ~~i~~~i~~F~~~~-~~~~~fppm-~~~~R~~vH~lA~~~~L~S~S~G~g---~~R~v~v~k   58 (58)
T cd02646           2 EDIKDEIEAFLLDS-RDSLSFPPM-DKHGRKTIHKLANCYNLKSKSRGKG---KKRFVTVTK   58 (58)
T ss_pred             hHHHHHHHHHHhCC-CceEecCCC-CHHHHHHHHHHHHHcCCcccccccC---CceEEEEEC
Confidence            47899999999998 477999999 9999999999999999999987754   345788775

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases

Probab=98.66  E-value=5.2e-08  Score=72.36  Aligned_cols=57  Identities=23%  Similarity=0.429  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHhcCCCccccccCC-CCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           39 LRMELDIQRFLQNPDQQHFEFQH-FPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        39 LrlE~di~~FI~d~~~~~lel~p-mpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      +.+++.|.+|+++. ...++||| | |+++|.++|.+|+.+||.|...+.|   ....|+|+|
T Consensus         2 i~i~~~i~~F~~~~-~~~l~Fpp~l-s~~eR~~vH~~a~~~gL~s~S~G~g---~~R~v~v~K   59 (59)
T cd06007           2 IAINKALEDFRASD-NEEYEFPSSL-TNHERAVIHRLCRKLGLKSKSKGKG---SNRRLSVYK   59 (59)
T ss_pred             ccHHHHHHHHHcCc-ccEEEcCCCC-CHHHHHHHHHHHHHcCCCceeecCC---CCeEEEEeC
Confidence            35789999999998 78899999 8 9999999999999999999985533   335566654

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02636 R3H_sperm-antigen R3H domain of a group of metazoan proteins that is related to the sperm-associated antigen 7

Probab=98.66  E-value=5.7e-08  Score=72.89  Aligned_cols=58  Identities=19%  Similarity=0.344  Sum_probs=49.4

Q ss_pred             HHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           40 RMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        40 rlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      ++|+.+.+||+|...+..+|+|| |+|+|-++|-+|+..||.+.....+  +...+|+|++
T Consensus         3 ~~e~~~~~f~~d~~~~~~~l~pM-~~~eRkivHDv~~~~Gl~S~S~Gee--e~~R~VVv~~   60 (61)
T cd02636           3 SMEKEVSKFIKDSVRTREKFQPM-DKVERSIVHDVAEVAGLTSFSFGED--EVDRYVMIFK   60 (61)
T ss_pred             hHHHHHHHHhhcccccccccCCC-CHHHHHHHHHHHHhcCceeEecCCC--CCceEEEEec
Confidence            68999999999987788899999 9999999999999999999885532  2235788765

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF)

Probab=98.66  E-value=5.9e-08  Score=72.26  Aligned_cols=57  Identities=23%  Similarity=0.374  Sum_probs=47.7

Q ss_pred             HHHHHHHHHhcCCCccccccCC-CCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           40 RMELDIQRFLQNPDQQHFEFQH-FPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        40 rlE~di~~FI~d~~~~~lel~p-mpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      .+++.|.+|+++.....+.||| | ++++|.+||.+|+-+||.|...+.+   ....|+|+|
T Consensus         3 ~~~~~i~~F~~s~~~~~l~f~p~l-t~~eR~~vH~~a~~~gL~s~S~G~g---~~R~v~v~k   60 (60)
T cd02640           3 DYRQIIQNYAHSDDIRDMVFSPEF-SKEERALIHQIAQKYGLKSRSYGSG---NDRYLVISK   60 (60)
T ss_pred             hHHHHHHHHHcCCccceEEcCCCC-CHHHHHHHHHHHHHcCCceeeEeCC---CCeEEEEeC
Confidence            4689999999998778899999 9 9999999999999999999986543   334565653

NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins

Probab=98.62  E-value=6.7e-08  Score=74.30  Aligned_cols=63  Identities=11%  Similarity=0.312  Sum_probs=52.4

Q ss_pred             hhHHHHHHHHHHHHHHhcCCCc-----cccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEE
Q 023439           33 RHRLTILRMELDIQRFLQNPDQ-----QHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVR   99 (282)
Q Consensus        33 kDRl~lLrlE~di~~FI~d~~~-----~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~   99 (282)
                      ++-.|+.++|+.|..|+.+...     ..+.|+|| |+|+|-+||.+|++|||.+...+.++.   .+|||+
T Consensus         6 ~~~~~~~~vE~~l~~la~~~~~~~~~~~~~~l~PM-~~~eR~iIH~la~~~~l~S~S~G~ep~---R~VvI~   73 (74)
T cd02643           6 KDPKFVKDVEKDLIELVESVNKGKQTSRSHSFPPM-NREKRRIVHELAEHFGIESVSYDQEPK---RNVVAT   73 (74)
T ss_pred             HCHHHHHHHHHHHHHHHHHHHhccccCCeeECCCC-CHHHHHHHHHHHhhCCCEEEecCCCCC---ceEEEe
Confidence            3456999999999999996432     45789999 999999999999999999999886543   467775

Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02644 R3H_jag R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ

Probab=97.47  E-value=0.00044  Score=52.39  Aligned_cols=61  Identities=13%  Similarity=0.211  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhc-cceeeeccCccCCcceEEEEe
Q 023439           35 RLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYG-LVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        35 Rl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yyg-L~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      .-.|.+|-+.+.+.+..... .+.|+|| |+|+|-++|.+++-|+ |.+...+.+   ...+|+|.+
T Consensus         5 ~~~L~~~A~~~a~~v~~tg~-~~~l~PM-~~~eRrivH~~~~~~~~l~T~S~G~~---~~R~vvI~~   66 (67)
T cd02644           5 EETLIRLAERAAEKVRRTGK-PVKLEPM-NAYERRIIHDALANDEDVETESEGEG---PYRRVVISP   66 (67)
T ss_pred             HHHHHHHHHHHHHHHHHHCC-eeEeCCC-CHHHHHHHHHHHHhCCCceEEeecCC---CCeEEEEEe
Confidence            34577788888888888764 4999999 9999999999999777 999987754   346788864

SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain

Probab=97.21  E-value=0.00014  Score=54.28  Aligned_cols=59  Identities=15%  Similarity=0.228  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEe
Q 023439           39 LRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRK  100 (282)
Q Consensus        39 LrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~K  100 (282)
                      |.+--+|.-|..+.....+.|||-.+.-+|.++|.||..+||.|.....|   ....|+|+|
T Consensus         2 l~~YsqlllFkdd~~~~eL~Fp~~ls~~eRriih~la~~lGL~~~s~G~g---~~R~v~v~k   60 (60)
T cd02639           2 LEIYSQLLLFKDDRMRDELAFPSSLSPAERRIVHLLASRLGLNHVSDGTG---ERRQVQITK   60 (60)
T ss_pred             ccceeeEEEEecCCCceEEEcCCCCCHHHHHHHHHHHHHcCCceEEeCCC---ceEEEeecC
Confidence            34445667788888888899998559999999999999999999985533   334565553

Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02645 R3H_AAA R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain

Probab=96.80  E-value=0.0037  Score=46.69  Aligned_cols=52  Identities=19%  Similarity=0.318  Sum_probs=38.3

Q ss_pred             HHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEE
Q 023439           43 LDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVR   99 (282)
Q Consensus        43 ~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~   99 (282)
                      ..+.+-+ .+.....+|.|| |+|-|-++|.+.+.|||.+.....+++   .+|+|.
T Consensus         8 ~aa~~V~-~~~~~~veL~Pm-~~~eRri~H~~v~~~~l~s~S~G~ep~---RrvvI~   59 (60)
T cd02645           8 LAIEQVV-IPKGEPVELLPR-SAYIRRLQHDLVERYQLRSESFGSEPN---RRLRIL   59 (60)
T ss_pred             HHHHHHH-hcCCceEEcCCC-CHHHHHHHHHHHHHCCCeEEEecCCCC---cEEEEe
Confidence            3334434 444234899999 999999999999999999999764433   467764

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA or ssRNA in a sequence-specific manner.

>cd02638 R3H_unknown_1 R3H domain of a group of eukaryotic proteins with unknown function

Probab=95.55  E-value=0.036  Score=42.05  Aligned_cols=55  Identities=20%  Similarity=0.295  Sum_probs=39.6

Q ss_pred             HHHHHHHHhcCCCc-cccccCCCCChHHHHHHHHhhh-hhccceeeeccCccCCcceEEEE
Q 023439           41 MELDIQRFLQNPDQ-QHFEFQHFPTSYLRLAAHRVSQ-HYGLVTMVQENGIEGLGNRILVR   99 (282)
Q Consensus        41 lE~di~~FI~d~~~-~~lel~pmpnSY~RLLvHRlA~-yygL~h~v~d~~~dgsg~~Ivv~   99 (282)
                      ..+++.-|++.... -.+.|+|| |+|.|-++|...+ +-++.+..++.+   ...+|+|.
T Consensus         4 ~~~~~~~f~~~~~~~r~v~LePM-~~~ERkIIH~~Lq~~~~v~T~S~G~e---p~RrVVI~   60 (62)
T cd02638           4 VSEELEIFLLSFQRYRVLLFPPL-NSRRRYLIHQTVENRFLLSTFSVGEG---WARRTVVC   60 (62)
T ss_pred             hHHHHHHHHHhcccCCeEecCCC-ChHHHHHHHHHHhcCCCceEEEccCC---CCcEEEEe
Confidence            45677778887633 45789999 9999999998655 667777765533   34567664

The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.

>cd02637 R3H_PARN R3H domain of Poly(A)-specific ribonuclease (PARN)

Probab=91.46  E-value=0.28  Score=37.19  Aligned_cols=36  Identities=14%  Similarity=0.255  Sum_probs=30.2

Q ss_pred             HHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhh
Q 023439           41 MELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHY   78 (282)
Q Consensus        41 lE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yy   78 (282)
                      +...+.+|+++. ...++++|| |+|+|-|+++...+.
T Consensus         4 v~~~i~~fl~s~-~~~l~le~c-ngf~RkLiyq~l~~~   39 (65)
T cd02637           4 VIERIEAFLESE-EDDLELEPC-NGFQRKLIYQTLEQK   39 (65)
T ss_pred             HHHHHHHHHhcC-ccccccccc-ccHHHHHHHHHHHHH
Confidence            345678899887 567999999 999999999987765

PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	282
1whr_A	124	Solution Structure Of The R3h Domain From Human Hyp		2e-08

>pdb|1WHR|A Chain A, Solution Structure Of The R3h Domain From Human Hypothetical Protein Baa76846 Length = 124

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 56/93 (60%), Gaps = 11/93 (11%)
Query: 24  FLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFP--TSYLRLAAHRVSQHYGL 80
           FLV  L+ NPR R+ +L++E +I  F+ + + Q   F+ FP  TSY R+  HRV+ ++G+
Sbjct: 18  FLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQ---FKKFPQMTSYHRMLLHRVAAYFGM 74
Query: 81  VTMVQENGIEGLGNRILVRKTAESKYPAVRLSE 113
                ++ ++  G  +++ KT+ ++ P  R SE
Sbjct: 75  -----DHNVDQTGKAVIINKTSNTRIPEQRFSE 102

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	282
1whr_A	124	Hypothetical KIAA1002 protein; R3H domain, structu	8e-26
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07

>1whr_A Hypothetical KIAA1002 protein; R3H domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.68.7.1 Length = 124

 Score = 97.8 bits (243), Expect = 8e-26
 Identities = 33/120 (27%), Positives = 67/120 (55%), Gaps = 11/120 (9%)

Query: 21  VDPFLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYG 79
           +  FLV  L+ NPR R+ +L++E +I  F+ + + Q  +F    TSY R+  HRV+ ++G
Sbjct: 15  LHEFLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQFKKFPQ-MTSYHRMLLHRVAAYFG 73

Query: 80  LVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAG 139
           +     ++ ++  G  +++ KT+ ++ P  R SE    + E++ + ++    I   P++G
Sbjct: 74  M-----DHNVDQTGKAVIINKTSNTRIPEQRFSEH--IKDEKNTEFQQRF--ILSGPSSG 124

>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 = 51.0 bits (121), Expect = 2e-07
 Identities = 52/343 (15%), Positives = 109/343 (31%), Gaps = 106/343 (30%)

Query: 13  IVNERESMVDPFLVEALQ-NPRHRLTILRME-----LDIQRFLQNPDQQHFEFQHF---- 62
           +++++E MV  F+ E L+ N +  ++ ++ E     +  + +++  D+ + + Q F    
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 63  -----PTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIP-- 115
                P   LR A   +     ++  +   G+ G G   +      S        ++   
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVL--ID--GVLGSGKTWVALDVCLSY---KVQCKMDFK 183

Query: 116 ------AKQSEESDKLEKI-KIAIRRRPNAGCVNGANETGTKRSPVRSVEERK------E 162
                    +     LE + K+  +  PN    + ++ +   +  + S++         +
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNW--TSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 163 EYDRA------------------RARI-----FSGPSSPNSEDTLTQVSTDMKNIGFNRD 199
            Y+                      +I     F   +   S  T T +S D  ++    D
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 200 ERE-----IVRNSITD----AEKI----ISI-----RDGAGLSRVAIFRDREKDRT---- 237
           E +      +     D            +SI     RD  GL+    ++    D+     
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD--GLATWDNWKHVNCDKLTTII 359

Query: 238 -------DPDYDRSYERKFNFHLCSTILVFPNSVRSQGLKLPS 273
                  +P   R       F   S   VFP S       +P+
Sbjct: 360 ESSLNVLEPAEYRKM-----FDRLS---VFPPSA-----HIPT 389

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	282
1whr_A	124	Hypothetical KIAA1002 protein; R3H domain, structu	100.0
1msz_A	86	DNA-binding protein smubp-2; R3H fold; NMR {Homo s	98.66
2cpm_A	94	Sperm-associated antigen 7; R3H domain, structural	98.23
1ug8_A	87	Poly(A)-specific ribonuclease; R3H domain, poly(A)	97.16
3gku_A	225	Probable RNA-binding protein; APC21302, clostridiu	88.21

>1whr_A Hypothetical KIAA1002 protein; R3H domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.68.7.1

Probab=100.00  E-value=1.9e-34  Score=239.54  Aligned_cols=115  Identities=29%  Similarity=0.498  Sum_probs=101.5

Q ss_pred             hhccCCCCchHHHHHHhc-CchhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccC
Q 023439           13 IVNERESMVDPFLVEALQ-NPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEG   91 (282)
Q Consensus        13 ~~~~~~~~vd~~L~eAL~-npkDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dg   91 (282)
                      ..+..+.+||+||++||+ ||+||++||+||++|++||+++.++.++|||| |||+|||+|+||+||||+|.+     |+
T Consensus         7 ~~d~~~~~vd~~l~eaL~~~~rdR~~il~lE~~i~~Fi~d~~~~~~ef~pm-nSy~RllvHrvAe~ygL~h~~-----d~   80 (124)
T 1whr_A            7 GTDSTGIDLHEFLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQFKKFPQM-TSYHRMLLHRVAAYFGMDHNV-----DQ   80 (124)
T ss_dssp             SSCCCCSCHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHCSSCCEEECCCC-CHHHHHHHHHHHHHHTCCEEE-----CS
T ss_pred             cccCCCCccCHHHHHHHHcCHHHHHHHHHHHHHHHHHHhCCCccceECCCC-CHHHHHHHHHHHHHhCcCccc-----cC
Confidence            357789999999999996 99999999999999999999999899999999 999999999999999999976     44


Q ss_pred             CcceEEEEecCCCCCCcccccccccCCcCcCchhhhhhhheeeCCC
Q 023439           92 LGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPN  137 (282)
Q Consensus        92 sg~~Ivv~KT~~triP~vrLsdl~~~~~~~~~~~~~~k~~ImrR~~  137 (282)
                      .+.+|+|+||++|++|+++|+|+++...  +  .+.++..|+||++
T Consensus        81 ~~r~VvV~Kt~~tr~P~~~lse~~~~~~--~--~~~~~~~vl~r~~  122 (124)
T 1whr_A           81 TGKAVIINKTSNTRIPEQRFSEHIKDEK--N--TEFQQRFILSGPS  122 (124)
T ss_dssp             SCSSEEEECCTTCCCCSCCGGGTSCSCS--C--CCCCCSSCCCCCC
T ss_pred             CCCEEEEEeCCCCCCChHHHHHHhcccc--c--ccchheeeEecCC
Confidence            5689999999999999999999996532  2  2244667889985

>2cpm_A Sperm-associated antigen 7; R3H domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.23  E-value=3.1e-06  Score=66.96  Aligned_cols=63  Identities=22%  Similarity=0.278  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEecC
Q 023439           37 TILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKTA  102 (282)
Q Consensus        37 ~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~KT~  102 (282)
                      |--+.|+.|..|++...++.+.|+|| |+|.|-++|.+++.|||.+...+.++.  ..+|||++..
T Consensus        12 yR~~re~~L~~la~~~g~~~v~L~PM-~~~eRriIH~~l~~~gl~S~S~Geep~--~R~VvI~~~~   74 (94)
T 2cpm_A           12 FRKRMEKEVSDFIQDSGQIKKKFQPM-NKIERSILHDVVEVAGLTSFSFGEDDD--CRYVMIFKKE   74 (94)
T ss_dssp             HHHHHHHHHHHHHHCSSCCEEECCCC-CSSHHHHHHHHHHHHTCEEEEECSSSS--CCEEEEECST
T ss_pred             HHHHHHHHHHHHHHhcCCCceEeCCC-CHHHHHHHHHHHHHCCCEEEEecCCCC--ceEEEEEeCC
Confidence            55688999999998887556999999 999999999999999999999775432  1479888654

>1ug8_A Poly(A)-specific ribonuclease; R3H domain, poly(A)-specific 3'-exoribonuclease, PARN, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.68.7.1

Probab=97.16  E-value=0.0012  Score=51.87  Aligned_cols=44  Identities=18%  Similarity=0.243  Sum_probs=40.3

Q ss_pred             chhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhh
Q 023439           32 PRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQ   76 (282)
Q Consensus        32 pkDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~   76 (282)
                      |.++-||=.+-..|.+|++++....++++|+ |+|+|-|+++.+.
T Consensus         7 ~e~k~~id~i~~kIe~FL~s~~~~~l~l~pC-N~f~RkLIYQ~~~   50 (87)
T 1ug8_A            7 GDQKKFIDQVIEKIEDFLQSEEKRSLELDPC-TGFQRKLIYQTLS   50 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCSSCCEEECCCC-CSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhCCCCCceecCCc-hHHHHHHHHHHHH
Confidence            5788899999999999999998788999999 9999999999854

>3gku_A Probable RNA-binding protein; APC21302, clostridium symbiosum ATCC 14 structural genomics, PSI-2, protein structure initiative; 2.95A {Clostridium symbiosum atcc 14940}

Probab=88.21  E-value=0.78  Score=41.15  Aligned_cols=60  Identities=13%  Similarity=0.150  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhh-ccceeeeccCccCCcceEEEEec
Q 023439           37 TILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHY-GLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        37 ~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yy-gL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      .|-+|-+.+.+=+.... ..+.|.|| |+|.|-+||...+-+ |+.+.....+   ...+|||...
T Consensus       149 ~L~~lA~~~A~kV~~tg-~~v~L~PM-~~~ERriIH~al~~~~~V~T~SeGee---p~R~VVI~~~  209 (225)
T 3gku_A          149 TLETLAKNIAYKVKRTK-RSVSLEPM-NPYERRIIHAALQNDKYVVTRSDGEE---PFRHVIISLK  209 (225)
T ss_dssp             HHHHHHHHHHHHHHHHC-SCEECCCC-CHHHHHHHHHHTTTCSSEEEEEESST---TSCEEEEEEC
T ss_pred             HHHHHHHHHHHHHHHhC-CEEEccCC-CHHHHHHHHHHHccCCCcEEEEeecC---CCeEEEEEEc
Confidence            34444444444444443 34789999 999999999976654 8888876644   3357887653

---

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	282
d1whra_	124	d.68.7.1 (A:) R3H domain protein KIAA1002 {Human (	3e-28

>d1whra_ d.68.7.1 (A:) R3H domain protein KIAA1002 {Human (Homo sapiens) [TaxId: 9606]} Length = 124

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: R3H domain
family: R3H domain
domain: R3H domain protein KIAA1002
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (257), Expect = 3e-28
 Identities = 34/120 (28%), Positives = 61/120 (50%), Gaps = 11/120 (9%)

Query: 21  VDPFLVEAL-QNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYG 79
           +  FLV  L +NPR R+ +L++E +I  F+ + + Q  +F    TSY R+  HRV+ ++G
Sbjct: 15  LHEFLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQFKKFPQ-MTSYHRMLLHRVAAYFG 73

Query: 80  LVTMVQENGIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAG 139
           +   V +      G  +++ KT+ ++ P  R SE    +       E  +  I   P++G
Sbjct: 74  MDHNVDQT-----GKAVIINKTSNTRIPEQRFSEHIKDEKNT----EFQQRFILSGPSSG 124

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	282
d1whra_	124	R3H domain protein KIAA1002 {Human (Homo sapiens)	99.97
d1msza_	62	SmuBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.04
d1ug8a_	87	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	97.06

>d1whra_ d.68.7.1 (A:) R3H domain protein KIAA1002 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: R3H domain
family: R3H domain
domain: R3H domain protein KIAA1002
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=2.6e-32  Score=224.42  Aligned_cols=121  Identities=28%  Similarity=0.507  Sum_probs=107.3

Q ss_pred             hhhhhhccCCCCchHHHHHHh-cCchhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhhccceeeecc
Q 023439            9 AAAAIVNERESMVDPFLVEAL-QNPRHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHYGLVTMVQEN   87 (282)
Q Consensus         9 ~~~~~~~~~~~~vd~~L~eAL-~npkDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yygL~h~v~d~   87 (282)
                      +++++.+..+.+|++||+++| +||+||+|||+||++|++||+|+..+.++|||| |+|+|||||+||+||||.|++++ 
T Consensus         3 ~~~~~td~~~~dl~~fl~~~l~~~~~dr~fil~lE~~l~~Fi~d~~~~~~~fppM-~s~~R~~vH~lAe~ygL~s~s~~-   80 (124)
T d1whra_           3 SGSSGTDSTGIDLHEFLVNTLKKNPRDRMMLLKLEQEILEFINDNNNQFKKFPQM-TSYHRMLLHRVAAYFGMDHNVDQ-   80 (124)
T ss_dssp             CCCSSSCCCCSCHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHCSSCCEEECCCC-CHHHHHHHHHHHHHHTCCEEECS-
T ss_pred             CCCcccCCccccHHHHHHHHHHcChHhHHHHHHHHHHHHHHHhCCccceeECCCC-CHHHHHHHHHHHHHhCCcccccC-
Confidence            445667889999999999999 599999999999999999999998889999999 99999999999999999998843 


Q ss_pred             CccCCcceEEEEecCCCCCCcccccccccCCcCcCchhhhhhhheeeCCCCC
Q 023439           88 GIEGLGNRILVRKTAESKYPAVRLSEIPAKQSEESDKLEKIKIAIRRRPNAG  139 (282)
Q Consensus        88 ~~dgsg~~Ivv~KT~~triP~vrLsdl~~~~~~~~~~~~~~k~~ImrR~~k~  139 (282)
                          .|.+|+|+||+.|++|.++|++++....    ..+.+|+.||.|+.++
T Consensus        81 ----~~r~v~v~kt~~sriP~~~lse~i~~~~----~~e~~~r~i~~rps~g  124 (124)
T d1whra_          81 ----TGKAVIINKTSNTRIPEQRFSEHIKDEK----NTEFQQRFILSGPSSG  124 (124)
T ss_dssp             ----SCSSEEEECCTTCCCCSCCGGGTSCSCS----CCCCCCSSCCCCCCCC
T ss_pred             ----CCCeEEEEeCCCCCCCcHHHHHHhCccc----ccchhhhhhhcCCCCC
Confidence                5589999999999999999999987542    2445588999998653

>d1msza_ d.68.7.1 (A:) SmuBP-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: R3H domain
family: R3H domain
domain: SmuBP-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=1.4e-10  Score=83.79  Aligned_cols=57  Identities=25%  Similarity=0.327  Sum_probs=50.2

Q ss_pred             HHHHHHHHHhcCCCccccccCC-CCChHHHHHHHHhhhhhccceeeeccCccCCcceEEEEec
Q 023439           40 RMELDIQRFLQNPDQQHFEFQH-FPTSYLRLAAHRVSQHYGLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        40 rlE~di~~FI~d~~~~~lel~p-mpnSY~RLLvHRlA~yygL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      .++..|.+||.+.. ..++||| | |+++|.+||.||++|||.|...+.++   ...|+|+|.
T Consensus         4 ~~~~~i~~Fv~s~~-~~~~f~p~m-~~~~R~~vH~lA~~~gl~s~S~G~~~---~R~v~v~kk   61 (62)
T d1msza_           4 HFRAMIVEFMASKK-MQLEFPPSL-NSHDRLRVHQIAEEHGLRHDSSGEGK---RRFITVSKR   61 (62)
T ss_dssp             HHHHHHHHHHHHTC-SEEEECTTC-CSHHHHHHHHHHHHTTEEEEEECSSS---CCEEEEEEC
T ss_pred             HHHHHHHHHHhCCC-CEEEeCCCC-CHHHHHHHHHHHHHcCCeEEEEcCCC---CcEEEEEeC
Confidence            57899999999986 5799998 9 99999999999999999999988653   357999886

>d1ug8a_ d.68.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: R3H domain
family: R3H domain
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.06  E-value=0.00035  Score=52.97  Aligned_cols=64  Identities=17%  Similarity=0.230  Sum_probs=48.5

Q ss_pred             hhHHHHHHHHHHHHHHhcCCCccccccCCCCChHHHHHHHHhhhhh-----ccceeeeccCccCCcceEEEEec
Q 023439           33 RHRLTILRMELDIQRFLQNPDQQHFEFQHFPTSYLRLAAHRVSQHY-----GLVTMVQENGIEGLGNRILVRKT  101 (282)
Q Consensus        33 kDRl~lLrlE~di~~FI~d~~~~~lel~pmpnSY~RLLvHRlA~yy-----gL~h~v~d~~~dgsg~~Ivv~KT  101 (282)
                      .++-||=.+.+.|.+|+++.+...|+|+|+ |+|+|.|+++...+=     +|.+.+ .   +..+.-|+|.|.
T Consensus         8 d~k~fI~~v~erIe~fL~see~k~l~lepC-ngFqRKLIYQtl~~kfp~kI~vet~~-~---Enk~r~Ivv~Kv   76 (87)
T d1ug8a_           8 DQKKFIDQVIEKIEDFLQSEEKRSLELDPC-TGFQRKLIYQTLSWKYPKGIHVETLE-T---DKKERHIVISKV   76 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSCCEEECCCC-CSHHHHHHHHHHHHHSSSSEEEEEEC-C---SSSCSEEEEEEC
T ss_pred             hHHHHHHHHHHHHHHHHcCcccceeecCCC-cHHHHHHHHHHHHHhCCCcceeeeee-e---cCCceEEEEEEc
Confidence            357799999999999999987678999999 999999999987742     222222 1   234466777764