Citrus Sinensis ID: 028127

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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---
Protein Sequence
MSPPAPIVETPVEEPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccEEcccEEEEEEEEcccEEEEEEccEEEEccccccEEEEcccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHccccHHHHHHHHHHccccHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHcccccccccccccccccccccccccccccccHHcccccccccccHHcccccHHHHHHHHHHccccccccEEEEEEEccccEEEEEcccccEccccccEEEEEcccEHHcHHHHHHHHHHHHHccccccccccccccccccccHHHHccHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHcc
Coil and Loop (DISEMBL)
msppapivetpveepekikpqdedepvvedvkddeeedddhdnddddeddddnkddgaqgwsskqsrSEKKSRKAMLKlgmkpvtgVSRVTIKRTKNILffiskpdvfkspnsetyVIFGEAKIEDLSTQLQTQAAQqfrmpdmgsvmakpdassaaagaqqdeeeeevdetgveprdidLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Flexible Loop (DISEMBL)
msppapivetpveepekikpqdedepvvedvkddeeedddhdnddddeddddnkddgaqgwsskqsrsekksrkamlklgmkpvtgvsrvtikRTKNILffiskpdvfkspnSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAagaqqdeeeeevdetgveprdiDLVMTQAgvsrskavkalkthngdivsaimeltt
Low Complexity Region (SEG)
MSPPAPIVETPVEEPEKIKPQdedepvvedvkddeeedddhdnddddeddddnkddGAQGWsskqsrsekksrkAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDlstqlqtqaaqqFRMPDMGSVMAKPDassaaagaqqdeeeeevdetgvePRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Disordered region (IsUnstruct)
********************************************************************************MKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIE****************************************************************************************
Disordered Region (DISOPRED)
*******************************************************************************GMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED**********************************************GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Disordered Region (DISEMBL)
***************************************************************************MLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGS****************************EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Disordered Region (DISPRO)
**********************************************************************K*RK*MLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQQ*********************************TGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSPPAPIVETPVEEPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
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	213	2.2.26 [Sep-21-2011]
Q94JX9	217	Nascent polypeptide-assoc	yes	no	0.957	0.940	0.705	3e-67
Q9SZY1	212	Nascent polypeptide-assoc	no	no	0.962	0.966	0.671	1e-59
Q9M612	205	Nascent polypeptide-assoc	N/A	no	0.713	0.741	0.723	5e-59
Q9LHG9	203	Nascent polypeptide-assoc	no	no	0.723	0.758	0.708	9e-55
Q8LGC6	209	Nascent polypeptide-assoc	no	no	0.704	0.717	0.727	2e-54
Q6ICZ8	204	Nascent polypeptide-assoc	no	no	0.741	0.774	0.742	8e-53
Q8AWF2	215	Nascent polypeptide-assoc	yes	no	0.694	0.688	0.626	7e-44
P70670	2187	Nascent polypeptide-assoc	yes	no	0.854	0.083	0.532	1e-42
Q8JIU7	215	Nascent polypeptide-assoc	no	no	0.694	0.688	0.613	3e-42
Q5E9A1	215	Nascent polypeptide-assoc	yes	no	0.694	0.688	0.613	4e-42

>sp|Q94JX9|NACA2_ARATH Nascent polypeptide-associated complex subunit alpha-like protein 2 OS=Arabidopsis thaliana GN=At3g49470 PE=2 SV=2

 Score =  254 bits (649), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 156/221 (70%), Positives = 180/221 (81%), Gaps = 17/221 (7%)

Query: 3   PPAPIVETPVEEPEKI----------KPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDD 52
           PPA + E+   +PE+           K    DEP+VEDVKDDE      D+DDDDE+++D
Sbjct: 4   PPAVVTESADGQPEQPPVTAIAEELEKKLQTDEPIVEDVKDDE------DDDDDDEEEED 57

Query: 53  NKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPN 112
           +   G  G SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKN+LFFISKPDVFKSP+
Sbjct: 58  DDAQGVSG-SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNVLFFISKPDVFKSPH 116

Query: 113 SETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDET 172
           SETYVIFGEAKIEDLS+QLQTQAAQQFRMP++G+   + +AS+A   AQ +E+EEE+DET
Sbjct: 117 SETYVIFGEAKIEDLSSQLQTQAAQQFRMPEIGATSQRAEASTATVEAQVEEDEEEIDET 176

Query: 173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           GVE RDIDLVMTQAGVSRSKAVKALK+H+GDIVSAIMELTT
Sbjct: 177 GVEARDIDLVMTQAGVSRSKAVKALKSHDGDIVSAIMELTT 217

May promote appropriate targeting of ribosome-nascent polypeptide complexes.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZY1|NACA4_ARATH Nascent polypeptide-associated complex subunit alpha-like protein 4 OS=Arabidopsis thaliana GN=At4g10480 PE=2 SV=1

 Score =  229 bits (584), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 145/216 (67%), Positives = 175/216 (81%), Gaps = 11/216 (5%)

Query: 4   PAPIVETPVEEP------EKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDG 57
           P P++E   EE       E++K Q E++ VVEDVKD +E+DDD D+DDD+  D   +++ 
Sbjct: 2   PGPVIEEVNEEALMDAIKEQMKLQKENDVVVEDVKDGDEDDDDVDDDDDEIADGAGENE- 60

Query: 58  AQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYV 117
               +SKQSRSEKKSRKAMLKLGMKPVT VSRVTIKR+KN+LF ISKPDVFKSPNSETYV
Sbjct: 61  ----ASKQSRSEKKSRKAMLKLGMKPVTDVSRVTIKRSKNVLFVISKPDVFKSPNSETYV 116

Query: 118 IFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPR 177
           IFGEAKI+D+S+QLQ QAAQ+F+MPD+ S++   D S AA  AQ++E++E+VDETGVE +
Sbjct: 117 IFGEAKIDDMSSQLQAQAAQRFKMPDVASMIPNTDGSEAATVAQEEEDDEDVDETGVEAK 176

Query: 178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           DIDLVMTQAGVSR KAVKALK  NGDIVSAIMELTT
Sbjct: 177 DIDLVMTQAGVSRPKAVKALKESNGDIVSAIMELTT 212

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M612|NACA_PINTA Nascent polypeptide-associated complex subunit alpha-like protein OS=Pinus taeda PE=2 SV=1

 Score =  227 bits (578), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 115/159 (72%), Positives = 136/159 (85%), Gaps = 7/159 (4%)

Query: 57  GAQGW--SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSE 114
           G QG    SKQSRSEKK RKAMLKLGMKPV+GVSRVTIK++KNILF IS PDVFKSP S+
Sbjct: 52  GEQGGEGKSKQSRSEKKCRKAMLKLGMKPVSGVSRVTIKKSKNILFVISNPDVFKSPTSD 111

Query: 115 TYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGV 174
           TY+ FGEAKIEDLS+QLQTQAA+QF+ P++  V  KP++S+AA      E+E+EVD+TGV
Sbjct: 112 TYIAFGEAKIEDLSSQLQTQAAEQFKAPNLSHVTMKPESSTAA-----QEDEDEVDDTGV 166

Query: 175 EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           EP+DI+LVMTQAGVSR+KAVKALK  +GDIVSAIM+LTT
Sbjct: 167 EPKDIELVMTQAGVSRTKAVKALKAADGDIVSAIMDLTT 205

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Pinus taeda (taxid: 3352)

>sp|Q9LHG9|NACA1_ARATH Nascent polypeptide-associated complex subunit alpha-like protein 1 OS=Arabidopsis thaliana GN=At3g12390 PE=1 SV=1

 Score =  213 bits (541), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 112/158 (70%), Positives = 133/158 (84%), Gaps = 4/158 (2%)

Query: 56  DGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSET 115
           DG  G  SKQSRSEKKSRKAMLKLGMKP+TGVSRVT+K++KNILF ISKPDVFKSP S+T
Sbjct: 50  DGEAGGKSKQSRSEKKSRKAMLKLGMKPITGVSRVTVKKSKNILFVISKPDVFKSPASDT 109

Query: 116 YVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVE 175
           YVIFGEAKIEDLS+Q+Q+QAA+QF+ PD+ +V++K ++SSAA     +E +EE      E
Sbjct: 110 YVIFGEAKIEDLSSQIQSQAAEQFKAPDLSNVISKGESSSAAVVQDDEEVDEEGV----E 165

Query: 176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           P+DI+LVMTQAGVSR  AVKALK  +GDIVSAIMELTT
Sbjct: 166 PKDIELVMTQAGVSRPNAVKALKAADGDIVSAIMELTT 203

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LGC6|NACA5_ARATH Nascent polypeptide-associated complex subunit alpha-like protein 5 OS=Arabidopsis thaliana GN=At1g33040 PE=2 SV=2

 Score =  211 bits (538), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 112/154 (72%), Positives = 138/154 (89%), Gaps = 4/154 (2%)

Query: 62  SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGE 121
           ++KQSRSEKKSRKA+LKLGMKPV+ VSRVTIKR KN+LF ISKPDV+KSPN+ETYVIFGE
Sbjct: 58  NAKQSRSEKKSRKAVLKLGMKPVSDVSRVTIKRAKNVLFVISKPDVYKSPNAETYVIFGE 117

Query: 122 AKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGA--QQDEEEEEVDETGVEPRDI 179
           AK++DLS+QLQTQAAQ+F+MPD+ S++  P+A S A  A   ++E+E++VD+TGVE RDI
Sbjct: 118 AKVDDLSSQLQTQAAQRFKMPDVTSML--PNAGSEATMAPLAEEEDEDDVDDTGVEARDI 175

Query: 180 DLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           DLVMTQAGVS++KAV ALK ++GDIVSAIMELTT
Sbjct: 176 DLVMTQAGVSKAKAVSALKANDGDIVSAIMELTT 209

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6ICZ8|NACA3_ARATH Nascent polypeptide-associated complex subunit alpha-like protein 3 OS=Arabidopsis thaliana GN=At5g13850 PE=1 SV=1

 Score =  206 bits (524), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 118/159 (74%), Positives = 141/159 (88%), Gaps = 1/159 (0%)

Query: 56  DGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSET 115
           DG  G  SKQSRSEKKSRKAMLKLGMKP+TGVSRVT+K++KNILF ISKPDVFKSP S+T
Sbjct: 46  DGEAGGRSKQSRSEKKSRKAMLKLGMKPITGVSRVTVKKSKNILFVISKPDVFKSPASDT 105

Query: 116 YVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQ-QDEEEEEVDETGV 174
           YVIFGEAKIEDLS+QLQ+QAA+QF+ P++ +V+++ + SSAA  A  QD+++EEVDE GV
Sbjct: 106 YVIFGEAKIEDLSSQLQSQAAEQFKAPNLSNVISQGETSSAATAAAVQDDDDEEVDEEGV 165

Query: 175 EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           EP+DI+LVMTQAGVS+ +AVKALK  NGDIVSAIMELTT
Sbjct: 166 EPKDIELVMTQAGVSKPRAVKALKLANGDIVSAIMELTT 204

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8AWF2|NACA_ORENI Nascent polypeptide-associated complex subunit alpha OS=Oreochromis niloticus GN=naca PE=2 SV=1

 Score =  176 bits (447), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 94/150 (62%), Positives = 124/150 (82%), Gaps = 2/150 (1%)

Query: 63  SKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEA 122
           +KQSRSEKK+RKAM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEA
Sbjct: 67  AKQSRSEKKARKAMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEA 126

Query: 123 KIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLV 182
           KIEDLS Q Q  AA++F++P  G  ++    ++     Q++ EEEEVDETGVE +DI+LV
Sbjct: 127 KIEDLSQQAQLAAAEKFKVP--GETVSNVQENTQTPTVQEESEEEEVDETGVEVKDIELV 184

Query: 183 MTQAGVSRSKAVKALKTHNGDIVSAIMELT 212
           M+QA VSR+KAV+ALK +N DIV+AIMELT
Sbjct: 185 MSQANVSRAKAVRALKNNNNDIVNAIMELT 214

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Oreochromis niloticus (taxid: 8128)

>sp|P70670|NACAM_MOUSE Nascent polypeptide-associated complex subunit alpha, muscle-specific form OS=Mus musculus GN=Naca PE=1 SV=2

 Score =  172 bits (437), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 98/184 (53%), Positives = 133/184 (72%), Gaps = 2/184 (1%)

Query: 29   EDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVS 88
            E V + EE+D         +     + D      +KQSRSEKK+RKAM KLG++ VTGV+
Sbjct: 2005 ESVPELEEQDSTQTATQQAQLAAAAEIDEEPVSKAKQSRSEKKARKAMSKLGLRQVTGVT 2064

Query: 89   RVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVM 148
            RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIEDLS Q Q  AA++F++   G  +
Sbjct: 2065 RVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLAAAEKFKV--QGEAV 2122

Query: 149  AKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI 208
            +    ++     Q++ EEEEVDETGVE +DI+LVM+QA VSR+KAV+ALK ++ DIV+AI
Sbjct: 2123 SNIQENTQTPTVQEESEEEEVDETGVEVKDIELVMSQANVSRAKAVRALKNNSNDIVNAI 2182

Query: 209  MELT 212
            MELT
Sbjct: 2183 MELT 2186

Prevents inappropriate targeting of non-secretory polypeptides to the endoplasmic reticulum (ER). Binds to nascent polypeptide chains as they emerge from the ribosome and blocks their interaction with the signal recognition particle (SRP), which normally targets nascent secretory peptides to the ER. Also reduces the inherent affinity of ribosomes for protein translocation sites in the ER membrane (M sites) (By similarity). Isoform 1 and isoform 2 appear to bind DNA and play roles in transcription. May act to regulate the expression of genes involved in the development of myotubes.

Mus musculus (taxid: 10090)

>sp|Q8JIU7|NACA_DANRE Nascent polypeptide-associated complex subunit alpha OS=Danio rerio GN=naca PE=1 SV=1

 Score =  171 bits (433), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 92/150 (61%), Positives = 122/150 (81%), Gaps = 2/150 (1%)

Query: 63  SKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEA 122
           +KQSRSEKK+RKAM KLG++ V GV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEA
Sbjct: 67  AKQSRSEKKARKAMSKLGLRQVAGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEA 126

Query: 123 KIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLV 182
           KIEDLS Q Q  AA++F++   G  ++    ++     Q++ EEEEVDETGVE +DI+LV
Sbjct: 127 KIEDLSQQAQLAAAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELV 184

Query: 183 MTQAGVSRSKAVKALKTHNGDIVSAIMELT 212
           M+QA VSR+KAV+ALK +N DIV+AIMELT
Sbjct: 185 MSQANVSRAKAVRALKNNNNDIVNAIMELT 214

May promote appropriate targeting of ribosome-nascent polypeptide complexes.

Danio rerio (taxid: 7955)

>sp|Q5E9A1|NACA_BOVIN Nascent polypeptide-associated complex subunit alpha OS=Bos taurus GN=NACA PE=1 SV=1

 Score =  171 bits (432), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 92/150 (61%), Positives = 123/150 (82%), Gaps = 2/150 (1%)

Query: 63  SKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEA 122
           +KQSRSEKK+RKAM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEA
Sbjct: 67  AKQSRSEKKARKAMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEA 126

Query: 123 KIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLV 182
           KIEDLS Q Q  AA++F++   G  ++    ++     Q++ EEEEVDETGVE +DI+LV
Sbjct: 127 KIEDLSQQAQLAAAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELV 184

Query: 183 MTQAGVSRSKAVKALKTHNGDIVSAIMELT 212
           M+QA VSR+KAV+ALK ++ DIV+AIMELT
Sbjct: 185 MSQANVSRAKAVRALKNNSNDIVNAIMELT 214

Prevents inappropriate targeting of non-secretory polypeptides to the endoplasmic reticulum (ER). Binds to nascent polypeptide chains as they emerge from the ribosome and blocks their interaction with the signal recognition particle (SRP), which normally targets nascent secretory peptides to the ER. Also reduces the inherent affinity of ribosomes for protein translocation sites in the ER membrane (M sites). May act as a specific coactivator for JUN, binding to DNA and stabilizing the interaction of JUN homodimers with target gene promoters.

Bos taurus (taxid: 9913)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	213
359490767	210	PREDICTED: nascent polypeptide-associate	0.737	0.747	0.918	3e-77
357464241	227	Nascent polypeptide-associated complex s	0.985	0.925	0.728	3e-69
388502016	227	unknown [Lotus japonicus]	0.924	0.867	0.78	1e-66
255560558	228	nascent polypeptide associated complex a	0.732	0.684	0.917	2e-65
15229149	217	nascent polypeptide-associated complex s	0.957	0.940	0.705	2e-65
118483345	224	unknown [Populus trichocarpa]	0.957	0.910	0.787	3e-65
224132584	225	predicted protein [Populus trichocarpa]	0.732	0.693	0.891	4e-65
297816168	217	nascent polypeptide-associated complex d	0.957	0.940	0.690	5e-65
13899101	217	alpha NAC-like protein [Arabidopsis thal	0.948	0.930	0.690	6e-65
351725181	225	uncharacterized protein LOC100499943 [Gl	0.920	0.871	0.783	4e-63

>gi|359490767|ref|XP_003634163.1| PREDICTED: nascent polypeptide-associated complex subunit alpha-like protein 2-like [Vitis vinifera] gi|302143993|emb|CBI23098.3| unnamed protein product [Vitis vinifera]

 Score =  293 bits (750), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 146/159 (91%), Positives = 150/159 (94%), Gaps = 2/159 (1%)

Query: 57  GAQGWS--SKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSE 114
           GAQG +  SKQSRSEKKSRKAMLKLGMKPVTGV RVTIKRTKNILFFISKPDVFKSPNSE
Sbjct: 52  GAQGANEGSKQSRSEKKSRKAMLKLGMKPVTGVGRVTIKRTKNILFFISKPDVFKSPNSE 111

Query: 115 TYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGV 174
           TYVIFGEAKIEDLS+QLQTQAAQQFRMPDMGSVMAK D S+AAAG Q DEEEE +DETGV
Sbjct: 112 TYVIFGEAKIEDLSSQLQTQAAQQFRMPDMGSVMAKSDISAAAAGTQADEEEEVIDETGV 171

Query: 175 EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT
Sbjct: 172 EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 210

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357464241|ref|XP_003602402.1| Nascent polypeptide-associated complex subunit alpha [Medicago truncatula] gi|217075474|gb|ACJ86097.1| unknown [Medicago truncatula] gi|355491450|gb|AES72653.1| Nascent polypeptide-associated complex subunit alpha [Medicago truncatula] gi|388495690|gb|AFK35911.1| unknown [Medicago truncatula]

 Score =  266 bits (681), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 164/225 (72%), Positives = 187/225 (83%), Gaps = 15/225 (6%)

Query: 4   PAPIVETPVEEPE---------------KIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDE 48
           P P+++ P  E E               K +P+++D P++EDVKDD+++D+D D DDDDE
Sbjct: 3   PGPVIDAPATESEVEQQIPSVDETTLKKKPQPEEDDAPIIEDVKDDDKDDEDDDEDDDDE 62

Query: 49  DDDDNKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVF 108
           DDDD +D  A    SKQSRSEKKSRKAMLKLG+KPVTGVSRVTIKRTKNILFFISKPDVF
Sbjct: 63  DDDDKEDALAGADGSKQSRSEKKSRKAMLKLGLKPVTGVSRVTIKRTKNILFFISKPDVF 122

Query: 109 KSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEE 168
           KSPNSETY+IFGEAKIEDLS+QLQTQAAQQFRMPDMGSVMAK D  ++A+GA  +EEEEE
Sbjct: 123 KSPNSETYIIFGEAKIEDLSSQLQTQAAQQFRMPDMGSVMAKQDQGASASGAIPEEEEEE 182

Query: 169 VDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           +DETGVEP DIDLVMTQAGVS+SKAVKALKTHNGDIV AIMELTT
Sbjct: 183 IDETGVEPHDIDLVMTQAGVSKSKAVKALKTHNGDIVGAIMELTT 227

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502016|gb|AFK39074.1| unknown [Lotus japonicus]

 Score =  258 bits (659), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 156/200 (78%), Positives = 175/200 (87%), Gaps = 3/200 (1%)

Query: 16  EKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWS--SKQSRSEKKSR 73
           +K +PQ++D P+VED KD ++++ D D D+DD+D+DD+K+DGA G S  SKQSRSEKKSR
Sbjct: 29  KKPQPQEDDAPIVEDAKDYDKDEADDDEDEDDDDEDDDKEDGALGGSEGSKQSRSEKKSR 88

Query: 74  KAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQT 133
           KAMLKLG+KPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLS+QLQT
Sbjct: 89  KAMLKLGLKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSSQLQT 148

Query: 134 QAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKA 193
           QAAQQFRMPDMGSVMAK D  +AA G Q +EEEE  +   VEP DIDLVMTQAGVSR KA
Sbjct: 149 QAAQQFRMPDMGSVMAKQDQGTAADGGQPEEEEEVDETG-VEPHDIDLVMTQAGVSRGKA 207

Query: 194 VKALKTHNGDIVSAIMELTT 213
           VKALKTHNGDIV AIMELTT
Sbjct: 208 VKALKTHNGDIVGAIMELTT 227

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560558|ref|XP_002521293.1| nascent polypeptide associated complex alpha subunit, putative [Ricinus communis] gi|223539478|gb|EEF41067.1| nascent polypeptide associated complex alpha subunit, putative [Ricinus communis]

 Score =  254 bits (649), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 144/157 (91%), Positives = 147/157 (93%), Gaps = 1/157 (0%)

Query: 57  GAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY 116
           GA G SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY
Sbjct: 73  GANG-SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY 131

Query: 117 VIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEP 176
           VIFGEAKIEDLS+QLQTQAAQQFRMPDM SV+ K D S AAA AQ DEEEEEVDETGVEP
Sbjct: 132 VIFGEAKIEDLSSQLQTQAAQQFRMPDMASVLPKSDLSGAAAAAQADEEEEEVDETGVEP 191

Query: 177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           RDIDLVMTQAGV RSKAVKALKTH+GDIVSAIMELTT
Sbjct: 192 RDIDLVMTQAGVPRSKAVKALKTHSGDIVSAIMELTT 228

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15229149|ref|NP_190516.1| nascent polypeptide-associated complex subunit alpha-like protein 2 [Arabidopsis thaliana] gi|71151985|sp|Q94JX9.2|NACA2_ARATH RecName: Full=Nascent polypeptide-associated complex subunit alpha-like protein 2; Short=NAC-alpha-like protein 2; AltName: Full=Alpha-NAC-like protein 2 gi|12324452|gb|AAG52192.1|AC012329_19 putative alpha NAC; 61864-63065 [Arabidopsis thaliana] gi|6561948|emb|CAB62452.1| alpha NAC-like protein [Arabidopsis thaliana] gi|332645026|gb|AEE78547.1| nascent polypeptide-associated complex subunit alpha-like protein 2 [Arabidopsis thaliana]

 Score =  254 bits (649), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 156/221 (70%), Positives = 180/221 (81%), Gaps = 17/221 (7%)

Query: 3   PPAPIVETPVEEPEKI----------KPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDD 52
           PPA + E+   +PE+           K    DEP+VEDVKDDE      D+DDDDE+++D
Sbjct: 4   PPAVVTESADGQPEQPPVTAIAEELEKKLQTDEPIVEDVKDDE------DDDDDDEEEED 57

Query: 53  NKDDGAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPN 112
           +   G  G SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKN+LFFISKPDVFKSP+
Sbjct: 58  DDAQGVSG-SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNVLFFISKPDVFKSPH 116

Query: 113 SETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDET 172
           SETYVIFGEAKIEDLS+QLQTQAAQQFRMP++G+   + +AS+A   AQ +E+EEE+DET
Sbjct: 117 SETYVIFGEAKIEDLSSQLQTQAAQQFRMPEIGATSQRAEASTATVEAQVEEDEEEIDET 176

Query: 173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           GVE RDIDLVMTQAGVSRSKAVKALK+H+GDIVSAIMELTT
Sbjct: 177 GVEARDIDLVMTQAGVSRSKAVKALKSHDGDIVSAIMELTT 217

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483345|gb|ABK93574.1| unknown [Populus trichocarpa]

 Score =  253 bits (646), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 163/207 (78%), Positives = 187/207 (90%), Gaps = 3/207 (1%)

Query: 8   VETPVEEP-EKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQS 66
           V++ VEE  +K  PQ+EDEPVVED   ++E+DD+ +++DD+++DDD+   GA G SSKQS
Sbjct: 20  VKSTVEETLQKKPPQNEDEPVVED-VKEDEKDDEDEDEDDEDEDDDDDTPGANG-SSKQS 77

Query: 67  RSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           RSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED
Sbjct: 78  RSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 137

Query: 127 LSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQA 186
           LS+QLQTQAAQQFRMPDM S++ K DAS+AAA A  +EEEEEVD+TGVEPRDIDLVMTQA
Sbjct: 138 LSSQLQTQAAQQFRMPDMSSMLPKSDASTAAASAPPEEEEEEVDDTGVEPRDIDLVMTQA 197

Query: 187 GVSRSKAVKALKTHNGDIVSAIMELTT 213
           GVSR+KAVKAL+T+NGDIVSAIMELTT
Sbjct: 198 GVSRTKAVKALQTNNGDIVSAIMELTT 224

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132584|ref|XP_002321358.1| predicted protein [Populus trichocarpa] gi|222868354|gb|EEF05485.1| predicted protein [Populus trichocarpa]

 Score =  253 bits (645), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 140/157 (89%), Positives = 149/157 (94%), Gaps = 1/157 (0%)

Query: 57  GAQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY 116
           GA G SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY
Sbjct: 70  GANG-SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY 128

Query: 117 VIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEP 176
           VIFGEAKIEDLS+QLQTQAAQQFRMPDM S++ K DAS+AAA A  +EEEEEVD+TGVEP
Sbjct: 129 VIFGEAKIEDLSSQLQTQAAQQFRMPDMSSMLPKSDASTAAASAPPEEEEEEVDDTGVEP 188

Query: 177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           RDIDLVMTQAGVSR+KAVKAL+T+NGDIVSAIMELTT
Sbjct: 189 RDIDLVMTQAGVSRTKAVKALQTNNGDIVSAIMELTT 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816168|ref|XP_002875967.1| nascent polypeptide-associated complex domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297321805|gb|EFH52226.1| nascent polypeptide-associated complex domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  253 bits (645), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 156/226 (69%), Positives = 181/226 (80%), Gaps = 22/226 (9%)

Query: 1   MSPPAPIV----ETPVEEP-------EKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDED 49
           MSPP  +V    +  +E+P       E  K    DEP+VEDVKDDE++DDD D ++DD+ 
Sbjct: 1   MSPPPAVVTESADGQLEQPPAAAIAEELEKKLQTDEPIVEDVKDDEDDDDDDDEEEDDD- 59

Query: 50  DDDNKDDGAQG--WSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDV 107
                   AQG   SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKN+LFFISKPDV
Sbjct: 60  --------AQGVSGSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNVLFFISKPDV 111

Query: 108 FKSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEE 167
           FKSP+SETYVIFGEAKIEDLS+QLQTQAAQQFRMP++G+   + +AS+A   AQ +E+EE
Sbjct: 112 FKSPHSETYVIFGEAKIEDLSSQLQTQAAQQFRMPEIGATSQRAEASAATVEAQVEEDEE 171

Query: 168 EVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           ++DETGVE RDIDLVMTQAGVSRSKAV ALK+H+GDIVSAIMELTT
Sbjct: 172 DIDETGVEARDIDLVMTQAGVSRSKAVNALKSHDGDIVSAIMELTT 217

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|13899101|gb|AAK48972.1|AF370545_1 alpha NAC-like protein [Arabidopsis thaliana] gi|18377570|gb|AAL66951.1| alpha NAC-like protein [Arabidopsis thaliana]

 Score =  252 bits (644), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 154/223 (69%), Positives = 180/223 (80%), Gaps = 21/223 (9%)

Query: 3   PPAPIVETPVEEPEKI----------KPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDD 52
           PPA + E+   +PE+           K    DEP+VEDVKDDE++DDD + ++DD+    
Sbjct: 4   PPAVVTESADGQPEQPPVTAIAEELEKKLQTDEPIVEDVKDDEDDDDDDEEEEDDD---- 59

Query: 53  NKDDGAQG--WSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKS 110
                AQG   SSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKN+LFFISKPDVFKS
Sbjct: 60  -----AQGVSGSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNVLFFISKPDVFKS 114

Query: 111 PNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVD 170
           P+SETYVIFGEAKIEDLS+QLQTQAAQQF+MP++G+   + +AS+A   AQ +E+EEE+D
Sbjct: 115 PHSETYVIFGEAKIEDLSSQLQTQAAQQFKMPEIGATSQRAEASTATVEAQVEEDEEEID 174

Query: 171 ETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT 213
           ETGVE RDIDLVMTQAGVSRSKAVKALK+H+GDIVSAIMELTT
Sbjct: 175 ETGVEARDIDLVMTQAGVSRSKAVKALKSHDGDIVSAIMELTT 217

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725181|ref|NP_001238363.1| uncharacterized protein LOC100499943 [Glycine max] gi|255627897|gb|ACU14293.1| unknown [Glycine max]

 Score =  246 bits (629), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 156/199 (78%), Positives = 178/199 (89%), Gaps = 3/199 (1%)

Query: 16  EKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNK-DDGAQGWSSKQSRSEKKSRK 74
           +K  PQ++D P+VEDVKDD++E+ + +++DDD+DD ++    GA+G   KQSRSEKKSRK
Sbjct: 29  KKAHPQEDDAPIVEDVKDDDKEETEDEDEDDDDDDKEDDAQGGAEG--GKQSRSEKKSRK 86

Query: 75  AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQ 134
           AMLKLG+KPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETY+IFGEAKIEDLS+QLQTQ
Sbjct: 87  AMLKLGLKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYIIFGEAKIEDLSSQLQTQ 146

Query: 135 AAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAV 194
           AAQQF MPD+GSV+AK D  +AAA AQ +EEEEEVDETGVEP DIDLVMTQAGVSRSKAV
Sbjct: 147 AAQQFGMPDVGSVLAKQDQDAAAAAAQPEEEEEEVDETGVEPHDIDLVMTQAGVSRSKAV 206

Query: 195 KALKTHNGDIVSAIMELTT 213
           KALKTHNGDIV AIMELTT
Sbjct: 207 KALKTHNGDIVGAIMELTT 225

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	213
TAIR|locus:2114703	217	NACA2 "AT3G49470" [Arabidopsis	0.652	0.640	0.647	1.8e-42
TAIR|locus:2127681	212	AT4G10480 "AT4G10480" [Arabido	0.652	0.655	0.618	1.1e-37
TAIR|locus:2159093	204	NACA3 "AT5G13850" [Arabidopsis	0.652	0.681	0.564	6.5e-35
TAIR|locus:2092462	203	AT3G12390 [Arabidopsis thalian	0.633	0.665	0.582	6.5e-35
TAIR|locus:2206975	209	NACA5 "AT1G33040" [Arabidopsis	0.652	0.665	0.561	1.7e-34
UNIPROTKB|Q5E9A1	215	NACA "Nascent polypeptide-asso	0.638	0.632	0.463	1.5e-26
UNIPROTKB|Q13765	215	NACA "Nascent polypeptide-asso	0.638	0.632	0.463	1.5e-26
MGI|MGI:106095	215	Naca "nascent polypeptide-asso	0.638	0.632	0.463	1.5e-26
FB|FBgn0086904	217	Nacalpha "Nascent polypeptide	0.638	0.626	0.445	2.5e-26
UNIPROTKB|H9KYU8	192	NACA2 "Uncharacterized protein	0.633	0.703	0.452	2.2e-25

TAIR|locus:2114703 NACA2 "AT3G49470" [Arabidopsis thaliana (taxid:3702)]

 Score = 432 (157.1 bits), Expect = 1.8e-42, Sum P(2) = 1.8e-42
 Identities = 90/139 (64%), Positives = 99/139 (71%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AMLKLGMKPVTGVSRVTIKRTKN+LFFISKPDVFKSP+SETYVIFGEAKIED        
Sbjct:    79 AMLKLGMKPVTGVSRVTIKRTKNVLFFISKPDVFKSPHSETYVIFGEAKIEDLSSQLQTQ 138

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 FRMP++G+   + +                        RDIDLVMTQAGVSRSKAV
Sbjct:   139 AAQQFRMPEIGATSQRAEASTATVEAQVEEDEEEIDETGVEARDIDLVMTQAGVSRSKAV 198

Query:   195 KALKTHNGDIVSAIMELTT 213
             KALK+H+GDIVSAIMELTT
Sbjct:   199 KALKSHDGDIVSAIMELTT 217

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2127681 AT4G10480 "AT4G10480" [Arabidopsis thaliana (taxid:3702)]

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 86/139 (61%), Positives = 94/139 (67%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AMLKLGMKPVT VSRVTIKR+KN+LF ISKPDVFKSPNSETYVIFGEAKI+D        
Sbjct:    74 AMLKLGMKPVTDVSRVTIKRSKNVLFVISKPDVFKSPNSETYVIFGEAKIDDMSSQLQAQ 133

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F+MPD+ S++   D                        +DIDLVMTQAGVSR KAV
Sbjct:   134 AAQRFKMPDVASMIPNTDGSEAATVAQEEEDDEDVDETGVEAKDIDLVMTQAGVSRPKAV 193

Query:   195 KALKTHNGDIVSAIMELTT 213
             KALK  NGDIVSAIMELTT
Sbjct:   194 KALKESNGDIVSAIMELTT 212

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2159093 NACA3 "AT5G13850" [Arabidopsis thaliana (taxid:3702)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 79/140 (56%), Positives = 96/140 (68%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AMLKLGMKP+TGVSRVT+K++KNILF ISKPDVFKSP S+TYVIFGEAKIED        
Sbjct:    65 AMLKLGMKPITGVSRVTVKKSKNILFVISKPDVFKSPASDTYVIFGEAKIEDLSSQLQSQ 124

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXX-PRDIDLVMTQAGVSRSKA 193
                 F+ P++ +V+++ +                        P+DI+LVMTQAGVS+ +A
Sbjct:   125 AAEQFKAPNLSNVISQGETSSAATAAAVQDDDDEEVDEEGVEPKDIELVMTQAGVSKPRA 184

Query:   194 VKALKTHNGDIVSAIMELTT 213
             VKALK  NGDIVSAIMELTT
Sbjct:   185 VKALKLANGDIVSAIMELTT 204

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0009651 "response to salt stress" evidence=IEP

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0051604 "protein maturation" evidence=RCA

TAIR|locus:2092462 AT3G12390 [Arabidopsis thaliana (taxid:3702)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 81/139 (58%), Positives = 95/139 (68%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AMLKLGMKP+TGVSRVT+K++KNILF ISKPDVFKSP S+TYVIFGEAKIED        
Sbjct:    69 AMLKLGMKPITGVSRVTVKKSKNILFVISKPDVFKSPASDTYVIFGEAKIEDLSSQIQSQ 128

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F+ PD+ +V++K +                       P+DI+LVMTQAGVSR  AV
Sbjct:   129 AAEQFKAPDLSNVISKGESSSAAVVQDDEEVDEEGVE----PKDIELVMTQAGVSRPNAV 184

Query:   195 KALKTHNGDIVSAIMELTT 213
             KALK  +GDIVSAIMELTT
Sbjct:   185 KALKAADGDIVSAIMELTT 203

GO:0005634 "nucleus" evidence=ISM

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0009651 "response to salt stress" evidence=IEP

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0006606 "protein import into nucleus" evidence=RCA

TAIR|locus:2206975 NACA5 "AT1G33040" [Arabidopsis thaliana (taxid:3702)]

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 78/139 (56%), Positives = 93/139 (66%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             A+LKLGMKPV+ VSRVTIKR KN+LF ISKPDV+KSPN+ETYVIFGEAK++D        
Sbjct:    71 AVLKLGMKPVSDVSRVTIKRAKNVLFVISKPDVYKSPNAETYVIFGEAKVDDLSSQLQTQ 130

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F+MPD+ S++                            RDIDLVMTQAGVS++KAV
Sbjct:   131 AAQRFKMPDVTSMLPNAGSEATMAPLAEEEDEDDVDDTGVEARDIDLVMTQAGVSKAKAV 190

Query:   195 KALKTHNGDIVSAIMELTT 213
              ALK ++GDIVSAIMELTT
Sbjct:   191 SALKANDGDIVSAIMELTT 209

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5E9A1 NACA "Nascent polypeptide-associated complex subunit alpha" [Bos taurus (taxid:9913)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 64/138 (46%), Positives = 87/138 (63%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED        
Sbjct:    79 AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLA 138

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F++   G  ++                           +DI+LVM+QA VSR+KAV
Sbjct:   139 AAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELVMSQANVSRAKAV 196

Query:   195 KALKTHNGDIVSAIMELT 212
             +ALK ++ DIV+AIMELT
Sbjct:   197 RALKNNSNDIVNAIMELT 214

GO:0005634 "nucleus" evidence=ISS

GO:0017025 "TBP-class protein binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0015031 "protein transport" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q13765 NACA "Nascent polypeptide-associated complex subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 64/138 (46%), Positives = 87/138 (63%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED        
Sbjct:    79 AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLA 138

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F++   G  ++                           +DI+LVM+QA VSR+KAV
Sbjct:   139 AAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELVMSQANVSRAKAV 196

Query:   195 KALKTHNGDIVSAIMELT 212
             +ALK ++ DIV+AIMELT
Sbjct:   197 RALKNNSNDIVNAIMELT 214

GO:0003677 "DNA binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0005854 "nascent polypeptide-associated complex" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0003231 "cardiac ventricle development" evidence=ISS

GO:0010664 "negative regulation of striated muscle cell apoptotic process" evidence=ISS

GO:0043403 "skeletal muscle tissue regeneration" evidence=ISS

GO:0048633 "positive regulation of skeletal muscle tissue growth" evidence=ISS

GO:0048742 "regulation of skeletal muscle fiber development" evidence=ISS

GO:0061384 "heart trabecula morphogenesis" evidence=ISS

GO:1901227 "negative regulation of transcription from RNA polymerase II promoter involved in heart development" evidence=ISS

GO:1901228 "positive regulation of transcription from RNA polymerase II promoter involved in heart development" evidence=ISS

GO:2000138 "positive regulation of cell proliferation involved in heart morphogenesis" evidence=ISS

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0017025 "TBP-class protein binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

MGI|MGI:106095 Naca "nascent polypeptide-associated complex alpha polypeptide" [Mus musculus (taxid:10090)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 64/138 (46%), Positives = 87/138 (63%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED        
Sbjct:    79 AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLA 138

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F++   G  ++                           +DI+LVM+QA VSR+KAV
Sbjct:   139 AAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELVMSQANVSRAKAV 196

Query:   195 KALKTHNGDIVSAIMELT 212
             +ALK ++ DIV+AIMELT
Sbjct:   197 RALKNNSNDIVNAIMELT 214

GO:0003677 "DNA binding" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0006810 "transport" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=IDA

FB|FBgn0086904 Nacalpha "Nascent polypeptide associated complex protein alpha subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 61/137 (44%), Positives = 84/137 (61%)

Query:    76 MLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXXX 135
             MLKLG+K + GV+RVTI+++KNILF I+ PDV+K+P+S+TY++FGEAKIED         
Sbjct:    80 MLKLGLKQIQGVNRVTIRKSKNILFVINNPDVYKNPHSDTYIVFGEAKIEDLSQQAQVAA 139

Query:   136 XXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAVK 195
                F+ P+     A                           +DI+LV+TQA  +R+KA+K
Sbjct:   140 AEKFKAPEAAGA-ADSVGATTSVAPIAEEDEEDVDDTGVDEKDIELVITQANTTRAKAIK 198

Query:   196 ALKTHNGDIVSAIMELT 212
             ALK +N DIV+AIMELT
Sbjct:   199 ALKNNNNDIVNAIMELT 215

GO:0048477 "oogenesis" evidence=IMP

GO:0005854 "nascent polypeptide-associated complex" evidence=ISS;NAS

GO:0005515 "protein binding" evidence=IPI

GO:0007317 "regulation of pole plasm oskar mRNA localization" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|H9KYU8 NACA2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 62/137 (45%), Positives = 85/137 (62%)

Query:    75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDXXXXXXXX 134
             AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED        
Sbjct:    56 AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLA 115

Query:   135 XXXXFRMPDMGSVMAKPDXXXXXXXXXXXXXXXXXXXXXXXPRDIDLVMTQAGVSRSKAV 194
                 F++   G  ++                           +DI+LVM+QA VSR+KAV
Sbjct:   116 AAEKFKV--QGEAVSNIQENTQTPTVQEESEEEEVDETGVEVKDIELVMSQANVSRAKAV 173

Query:   195 KALKTHNGDIVSAIMEL 211
             +ALK ++ DIV+AIM L
Sbjct:   174 RALKNNSNDIVNAIMAL 190

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94518	NACA_DROME	No assigned EC number	0.5533	0.6995	0.6866	yes	no
Q8AWF2	NACA_ORENI	No assigned EC number	0.6266	0.6948	0.6883	yes	no
Q9M612	NACA_PINTA	No assigned EC number	0.7232	0.7136	0.7414	N/A	no
Q5AYK0	NACA_EMENI	No assigned EC number	0.5189	0.6948	0.7290	yes	no
Q2U955	NACA_ASPOR	No assigned EC number	0.4264	0.8497	0.8960	yes	no
Q68F90	NACA_XENTR	No assigned EC number	0.6133	0.6948	0.6915	yes	no
Q4I2J8	NACA_GIBZE	No assigned EC number	0.4	0.8779	0.8947	yes	no
Q5E9A1	NACA_BOVIN	No assigned EC number	0.6133	0.6948	0.6883	yes	no
Q86S66	NACA_CAEEL	No assigned EC number	0.54	0.6760	0.7309	yes	no
Q94JX9	NACA2_ARATH	No assigned EC number	0.7058	0.9577	0.9400	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00037160001	SubName- Full=Chromosome chr16 scaffold_86, whole genome shotgun sequence; (133 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00018552001	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (155 aa)				•	•		•		0.676
	GSVIVG00029522001	SubName- Full=Chromosome chr13 scaffold_48, whole genome shotgun sequence; (129 aa)				•			•		0.541
	GSVIVG00031140001	SubName- Full=Chromosome chr14 scaffold_54, whole genome shotgun sequence; (234 aa)				•					0.536
	GSVIVG00026857001	RecName- Full=60S ribosomal protein L36; (110 aa)				•					0.532
	GSVIVG00025575001	SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (307 aa)				•					0.530
	GSVIVG00017233001	RecName- Full=40S ribosomal protein S12; (140 aa)				•					0.512
	GSVIVG00017791001	SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (318 aa)				•					0.493
	GSVIVG00002547001	SubName- Full=Chromosome chr2 scaffold_132, whole genome shotgun sequence; (210 aa)				•					0.487
	GSVIVG00036964001	SubName- Full=Putative uncharacterized protein (Chromosome chr14 scaffold_21, whole genome shot [...] (120 aa)				•					0.463
	GSVIVG00020970001	SubName- Full=Putative uncharacterized protein (Chromosome chr14 scaffold_21, whole genome shot [...] (120 aa)				•					0.463

---

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	213
pfam01849	50	pfam01849, NAC, NAC domain	6e-16
COG1308	122	COG1308, EGD2, Transcription factor homologous to	5e-14
PRK06369	115	PRK06369, nac, nascent polypeptide-associated comp	1e-09
pfam05327	554	pfam05327, RRN3, RNA polymerase I specific transcr	8e-05
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	2e-04
TIGR00264	116	TIGR00264, TIGR00264, alpha-NAC-related protein	8e-04
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.001
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.001
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	0.002
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	0.004

>gnl|CDD|202009 pfam01849, NAC, NAC domain

 Score = 68.7 bits (169), Expect = 6e-16
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query: 78  KLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           KLG+KP+ GV  VTI++    +   + P V KSP S TYV+FGEAK +D
Sbjct: 2   KLGLKPIEGVEEVTIRKKDGKVLVFNNPKVQKSPGSNTYVVFGEAKEKD 50

Length = 50

>gnl|CDD|224227 COG1308, EGD2, Transcription factor homologous to NACalpha-BTF3 [Transcription]

 Score = 65.9 bits (161), Expect = 5e-14
 Identities = 46/147 (31%), Positives = 67/147 (45%), Gaps = 38/147 (25%)

Query: 70  KKSRKAMLKLG--MKPVTGVSRVTIKRTKNILFFISKPDVF--KSPNSETYVIFGEAKIE 125
           +K +K M ++G  ++ + GV RV IK        I  P V   K+   +TY I G+   +
Sbjct: 9   RKLKKLMKQMGIDVEELDGVERVIIKLKDTEYV-IENPQVTVMKAMGQKTYQISGDPSAK 67

Query: 126 DLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQ 185
           +                                 A +  EE+ VDE+ +   DI LVM Q
Sbjct: 68  E---------------------------------AVKKPEEKTVDESDISEEDIKLVMEQ 94

Query: 186 AGVSRSKAVKALKTHNGDIVSAIMELT 212
           AGVSR +A+KAL+   GD+  AIM+LT
Sbjct: 95  AGVSREEAIKALEEAGGDLAEAIMKLT 121

Length = 122

>gnl|CDD|235786 PRK06369, nac, nascent polypeptide-associated complex protein; Reviewed

 Score = 53.7 bits (130), Expect = 1e-09
 Identities = 40/149 (26%), Positives = 57/149 (38%), Gaps = 49/149 (32%)

Query: 70  KKSRKAMLKLGMKPVT--GVSRVTIKRTKNILFFISKPDV--FKSPNSETYVIFGEAKIE 125
           +K ++ M ++G+  V    V  V I R K+       P V    +   +TY I GE    
Sbjct: 8   RKMKQMMKQMGID-VEELDVEEVII-RLKDKEIVFENPQVTVMDAQGQKTYQIVGEP--- 62

Query: 126 DLSTQLQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEP--RDIDLVM 183
                                                 EE E+  E  VE    DI+LV 
Sbjct: 63  --------------------------------------EEVEKEAEKEVEIPEEDIELVA 84

Query: 184 TQAGVSRSKAVKALKTHNGDIVSAIMELT 212
            Q GVS  +A KAL+  NGD+  AI++L+
Sbjct: 85  EQTGVSEEEARKALEEANGDLAEAILKLS 113

Length = 115

>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation factor RRN3

 Score = 42.3 bits (100), Expect = 8e-05
 Identities = 18/51 (35%), Positives = 26/51 (50%)

Query: 29  EDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKSRKAMLKL 79
           +D+ D+EEE    D DDDDEDD  + DD  +  S  +       ++   KL
Sbjct: 223 DDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVERTSTIKEVSEKL 273

This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae. Length = 554

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 41.0 bits (97), Expect = 2e-04
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 9   ETPVEEPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDD 52
               E PEK++   +D    +  + +EE+DDD D+D D++DD+ 
Sbjct: 340 AEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEG 383

Length = 390

>gnl|CDD|232898 TIGR00264, TIGR00264, alpha-NAC-related protein

 Score = 37.6 bits (87), Expect = 8e-04
 Identities = 23/48 (47%), Positives = 31/48 (64%), Gaps = 5/48 (10%)

Query: 164 EEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL 211
           EEEEE+ E      DI+LVM Q  VS+ +A +AL+   GD+  AIM+L
Sbjct: 72  EEEEEITED-----DIELVMKQCNVSKEEARRALEECGGDLAEAIMKL 114

This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator [Unknown function, General]. Length = 116

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 21  QDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKSRKAML 77
           +D+D+    D +D+E    + D DDDD+DDDD+     +    ++ R E + ++A L
Sbjct: 125 EDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRREWEEKRAEL 181

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 7   IVETPVEEPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQS 66
           I E   +EP       + E   +D ++ +EED++    +DDEDDDD+ DD     + ++S
Sbjct: 106 IEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDD-DIATRERS 164

Query: 67  RSEKKSRKAM 76
              ++ R+  
Sbjct: 165 LERRRRRREW 174

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 20/63 (31%), Positives = 37/63 (58%)

Query: 13  EEPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDGAQGWSSKQSRSEKKS 72
           +E E+   ++ED+   +D  DD+E++DD D+DDD++D+D++ DD      S      +  
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNETD 102

Query: 73  RKA 75
            +A
Sbjct: 103 NEA 105

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 36.4 bits (85), Expect = 0.004
 Identities = 13/44 (29%), Positives = 25/44 (56%)

Query: 14 EPEKIKPQDEDEPVVEDVKDDEEEDDDHDNDDDDEDDDDNKDDG 57
          +P           +  ++ +++ EDDD D++D+DEDD++  D G
Sbjct: 31 DPNAAAAAATAAAIESELDEEDLEDDDDDDEDEDEDDEEEADLG 74

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	213
KOG2239	209	consensus Transcription factor containing NAC and	100.0
PRK06369	115	nac nascent polypeptide-associated complex protein	100.0
COG1308	122	EGD2 Transcription factor homologous to NACalpha-B	99.98
TIGR00264	116	alpha-NAC-related protein. This hypothetical prote	99.97
PF01849	58	NAC: NAC domain; InterPro: IPR002715 Nascent polyp	99.83
KOG2240	162	consensus RNA polymerase II general transcription	98.48
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	97.65
KOG3450	119	consensus Huntingtin interacting protein HYPK [Gen	97.46
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	95.57
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	95.0
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	94.73
COG4008	153	Predicted metal-binding transcription factor [Tran	85.2
COG2103	298	Predicted sugar phosphate isomerase [General funct	84.48
PRK05441	299	murQ N-acetylmuramic acid-6-phosphate etherase; Re	82.4

>KOG2239 consensus Transcription factor containing NAC and TS-N domains [Transcription]

Probab=100.00  E-value=6.5e-55  Score=372.42  Aligned_cols=154  Identities=65%  Similarity=0.921  Sum_probs=138.2

Q ss_pred             CCCCCcccCccHHHHHHHHHHcCCeecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchhhHHHHHHHH
Q 028127           58 AQGWSSKQSRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQLQTQAAQ  137 (213)
Q Consensus        58 ~~~~~~k~sR~eKK~rKamkKLGlk~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s~q~q~~aae  137 (213)
                      +.++ +||||++||.||+|.||||++|+||+|||||+++|++|+|++|+|||+|+++||+|||+++++++++|+|.+|++
T Consensus        56 ~~~~-akqsrsekKark~m~KLGlk~v~gV~RVti~ksKNilfvI~kPdVyKsp~sdtYiiFGeakiedls~q~q~~aae  134 (209)
T KOG2239|consen   56 PVAK-AKQSRSEKKARKAMLKLGLKQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIIFGEAKIEDLSQQAQMQAAE  134 (209)
T ss_pred             chhh-hhcchHHHHHHHHHHhcCCccccceeEEEEEecccEEEEecCCceeccCCCceEEEecccccchhHHHHHHHHHH
Confidence            4445 999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCCCCCCCCCCCcchhhccCCCCccchhhccCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhcC
Q 028127          138 QFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT  213 (213)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~eeevde~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt~  213 (213)
                      +|+.+..+.........+ ..+.++++++++||++||+.+||+|||+|+||||++||+|||+|+||||||||+||+
T Consensus       135 ~fk~~~~~~~~~~~~~~~-~~~~~ee~dEeeVD~tgve~kDIeLVmsQanvSR~kAVkALk~~~~DiVnAIM~LT~  209 (209)
T KOG2239|consen  135 RFKVPQEAPGLIQEDTSA-TPPAQEESDEEEVDETGVEAKDIELVMSQANVSRAKAVKALKNNNNDIVNAIMELTK  209 (209)
T ss_pred             hccCCccccccccccccC-CCccccccchhccCcccCchhhHHHHHHHhhhhHHHHHHHHHhccchHHHHHHHhhC
Confidence            999887766655544333 122234556677999999999999999999999999999999999999999999996

>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed

Probab=100.00  E-value=1.1e-37  Score=247.83  Aligned_cols=106  Identities=30%  Similarity=0.496  Sum_probs=97.1

Q ss_pred             ccHHHHHHHHHHcCCe--ecCCeeEEEEEecCceEEEecCCeEE--eeCCCceEEEecceeecchhhHHHHHHHHHhcCC
Q 028127           67 RSEKKSRKAMLKLGMK--PVTGVSRVTIKRTKNILFFISKPDVF--KSPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMP  142 (213)
Q Consensus        67 R~eKK~rKamkKLGlk--~v~gV~rVtIrk~d~~~fVI~~PeV~--k~~gs~TYvIfGeak~ed~s~q~q~~aae~~~~~  142 (213)
                      =|||||||||+||||+  +| ||+||+|++.+ ..|||++|+||  +++|++||||||++++++++++            
T Consensus         5 ~nprk~rkmmkkmGik~e~i-~v~~V~Ir~~~-~~~Vi~~P~V~~m~~~g~~tY~I~Ge~~~e~~~~~------------   70 (115)
T PRK06369          5 MNPRKMKQMMKQMGIDVEEL-DVEEVIIRLKD-KEIVFENPQVTVMDAQGQKTYQIVGEPEEVEKEAE------------   70 (115)
T ss_pred             CCHHHHHHHHHHcCCcchhc-CeEEEEEEeCC-EEEEEcCCeEEEEecCCCcEEEEEeccEEeecccc------------
Confidence            3689999999999999  99 99999999998 79999999999  7999999999999999875421            


Q ss_pred             CCCCCCCCCCcchhhccCCCCccchhhccCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhcC
Q 028127          143 DMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT  213 (213)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~e~eeevde~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt~  213 (213)
                                                 .+++|+++||+|||+||||||++|++||++||||||+|||.|+.
T Consensus        71 ---------------------------~~~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~  114 (115)
T PRK06369         71 ---------------------------KEVEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS  114 (115)
T ss_pred             ---------------------------ccCCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence                                       03589999999999999999999999999999999999999973

>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]

Probab=99.98  E-value=6.5e-33  Score=221.96  Aligned_cols=113  Identities=40%  Similarity=0.613  Sum_probs=95.4

Q ss_pred             ccHHHHHHHHHHcCC--eecCCeeEEEEEecCceEEEecCCeEEe--eCCCceEEEecceeecchhhHHHHHHHHHhcCC
Q 028127           67 RSEKKSRKAMLKLGM--KPVTGVSRVTIKRTKNILFFISKPDVFK--SPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMP  142 (213)
Q Consensus        67 R~eKK~rKamkKLGl--k~v~gV~rVtIrk~d~~~fVI~~PeV~k--~~gs~TYvIfGeak~ed~s~q~q~~aae~~~~~  142 (213)
                      =|+|+|+|+|++|||  ++++||.||+|++.++. |+|++|.||.  +.|+.||+|.|.+..+.                
T Consensus         6 mnpr~l~k~mkqmGi~~eeld~v~~V~i~~kd~e-~vi~~P~V~~~~~~g~~~yqi~g~~~~~~----------------   68 (122)
T COG1308           6 MNPRKLKKLMKQMGIDVEELDGVERVIIKLKDTE-YVIENPQVTVMKAMGQKTYQISGDPSAKE----------------   68 (122)
T ss_pred             CCHHHHHHHHHHhCCCceeccCceEEEEEcCCce-EEeeCCcEEeehhcchhHHHHhcchhhhc----------------
Confidence            468999999999994  59999999999999985 9999999985  56899999999864000                


Q ss_pred             CCCCCCCCCCcchhhccCCCCccchhhccCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhcC
Q 028127          143 DMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT  213 (213)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~e~eeevde~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt~  213 (213)
                                       ..+.+++..+++..|+++||+|||+||||||++|||||+++|||||+|||+||.
T Consensus        69 -----------------~~~~~ee~~~d~~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~~  122 (122)
T COG1308          69 -----------------AVKKPEEKTVDESDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLTE  122 (122)
T ss_pred             -----------------ccccchhcccccCCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhcC
Confidence                             001223444677789999999999999999999999999999999999999984

>TIGR00264 alpha-NAC-related protein

Probab=99.97  E-value=1.1e-31  Score=213.57  Aligned_cols=107  Identities=32%  Similarity=0.488  Sum_probs=91.0

Q ss_pred             ccCccHHHHHHHHHHcCCe--ecCCeeEEEEEecCceEEEecCCeE--EeeCCCceEEEecceeecchhhHHHHHHHHHh
Q 028127           64 KQSRSEKKSRKAMLKLGMK--PVTGVSRVTIKRTKNILFFISKPDV--FKSPNSETYVIFGEAKIEDLSTQLQTQAAQQF  139 (213)
Q Consensus        64 k~sR~eKK~rKamkKLGlk--~v~gV~rVtIrk~d~~~fVI~~PeV--~k~~gs~TYvIfGeak~ed~s~q~q~~aae~~  139 (213)
                      .++|.-|+||+||+||||+  ++. |.+|+|++.++ .++|++|+|  |+++|+.||||||+++++++.           
T Consensus         6 ~nPr~~~~mkkmMk~MGi~~~eid-V~~ViIk~~~k-~ivf~~p~V~~m~~~G~~tYqI~G~~~~~~~~-----------   72 (116)
T TIGR00264         6 MNPKMLKQMQKMMKQMGMEMEDLD-VEEVIIVFDDE-EWIFENPKVQVMDILGVKTYQITGKPKKEKVE-----------   72 (116)
T ss_pred             CCcccHHHHHHHHHHcCCCccccc-cEEEEEEeCCc-eEEEecCeeEEEecCCcEEEEEecccEEeecc-----------
Confidence            3445556999999999998  355 99999999876 678999988  678899999999999865321           


Q ss_pred             cCCCCCCCCCCCCcchhhccCCCCccchhhccCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhcC
Q 028127          140 RMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT  213 (213)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~e~eeevde~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt~  213 (213)
                                             +       +.+|+++||+|||+||||||++|++||++||||||+|||.|+.
T Consensus        73 -----------------------~-------~~~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~~  116 (116)
T TIGR00264        73 -----------------------E-------EEEITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLEE  116 (116)
T ss_pred             -----------------------c-------ccCCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhhC
Confidence                                   0       0259999999999999999999999999999999999999973

This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.

>PF01849 NAC: NAC domain; InterPro: IPR002715 Nascent polypeptide-associated complex (NAC) is among the first ribosome-associated entities to bind the nascent polypeptide after peptide bond formation

Probab=99.83  E-value=6.6e-21  Score=134.16  Aligned_cols=58  Identities=48%  Similarity=0.824  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHcCCeecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecc
Q 028127           69 EKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED  126 (213)
Q Consensus        69 eKK~rKamkKLGlk~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed  126 (213)
                      |||||++|+||||++|+||.||+|++.+|.+|+|++|+||++++++||+|||++++++
T Consensus         1 ekk~~~~l~klgl~~i~~i~eV~i~~~dg~~~~~~~P~V~~~~~~~tyvV~G~~~~~~   58 (58)
T PF01849_consen    1 EKKLQKMLKKLGLKEIPGIEEVTIRKDDGTVFVFNNPEVQKSPGSNTYVVFGEAEEED   58 (58)
T ss_dssp             -------GHHCT-EEETTEEEEEEEETTTEEEEEESEEEEEETTCCEEEEESEEEEEE
T ss_pred             CHHHHHHHHHcCCcccCCcEEEEEEECCceEEEEcCCeEEEcCCCCEEEEEeeeEEcC
Confidence            6899999999999999999999999999999999999999999999999999998764

The nascent polypeptide-associated complex (NAC) of yeast functions in the targeting process of ribosomes to the ER membrane []. NAC may prevent binding of ribosome nascent chains (RNCs) without a signal sequence to yeast membranes.; PDB: 3MCE_D 3MCB_A 3LKX_B 1TR8_B.

>KOG2240 consensus RNA polymerase II general transcription factor BTF3 and related proteins [Transcription]

Probab=98.48  E-value=7.3e-08  Score=81.19  Aligned_cols=64  Identities=23%  Similarity=0.468  Sum_probs=60.0

Q ss_pred             CccHHHHHHHHHHcCCeecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchhh
Q 028127           66 SRSEKKSRKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLST  129 (213)
Q Consensus        66 sR~eKK~rKamkKLGlk~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s~  129 (213)
                      ....||++.-|+||++..++||.+|+|++.++.+++|++|.|.++...|||.|+|.+++..++.
T Consensus        38 ~~ddkKlqs~lkkl~v~~i~~i~evn~~k~~g~Vihf~~~~vqasl~~nTf~ItG~~~~k~l~E  101 (162)
T KOG2240|consen   38 TADDKKLQSSLKKLGVNNIPGIEEVNMFKNDGTVIHFNNPKVQASLAANTFTITGHAETKQLTE  101 (162)
T ss_pred             CcccchhhhhhhhhccccccchhHhhhccccceeEecCCccccccccCCeEEEecCCcccchhh
Confidence            5678999999999999999999999999999999999999999999999999999999886543

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=97.65  E-value=5.2e-05  Score=48.56  Aligned_cols=37  Identities=30%  Similarity=0.494  Sum_probs=32.0

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      |+++.|..+++. |++++.|++||+.++||+-.||.-|
T Consensus         1 i~~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    1 IDEEKVQQLMEM-GFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             SHHHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             CCHHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            356789999999 9999999999999999999998754

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]

Probab=97.46  E-value=7.3e-05  Score=59.75  Aligned_cols=43  Identities=30%  Similarity=0.612  Sum_probs=39.9

Q ss_pred             cCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhcC
Q 028127          171 ETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELTT  213 (213)
Q Consensus       171 e~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt~  213 (213)
                      ...|..+||+|+|...-+++.-|.+-|++++||+|.|+-.|+.
T Consensus        76 kV~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s  118 (119)
T KOG3450|consen   76 KVTIKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS  118 (119)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence            4568999999999999999999999999999999999988863

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=95.57  E-value=0.018  Score=38.03  Aligned_cols=33  Identities=24%  Similarity=0.361  Sum_probs=27.5

Q ss_pred             ccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       177 eDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      +-|.-.|+=|||+++.|+..|+.+|+||-.||=
T Consensus         2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~   34 (43)
T PF14555_consen    2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVN   34 (43)
T ss_dssp             HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHH
Confidence            357788999999999999999999999988873

>cd00194 UBA Ubiquitin Associated domain

Probab=95.00  E-value=0.041  Score=34.66  Aligned_cols=32  Identities=31%  Similarity=0.483  Sum_probs=26.2

Q ss_pred             HHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          179 IDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       179 IeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      |..+++ .|.+++.|+.||+.++||+-.|+--|
T Consensus         5 v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L   36 (38)
T cd00194           5 LEQLLE-MGFSREEARKALRATNNNVERAVEWL   36 (38)
T ss_pred             HHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            444444 69999999999999999999887544

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>smart00165 UBA Ubiquitin associated domain

Probab=94.73  E-value=0.054  Score=33.98  Aligned_cols=32  Identities=41%  Similarity=0.591  Sum_probs=25.5

Q ss_pred             HHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          179 IDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       179 IeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      |..+++ .|.+++.|+.||+.++||+-.|+--|
T Consensus         5 v~~L~~-mGf~~~~a~~aL~~~~~d~~~A~~~L   36 (37)
T smart00165        5 IDQLLE-MGFSREEALKALRAANGNVERAAEYL   36 (37)
T ss_pred             HHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            444444 49999999999999999998887443

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>COG4008 Predicted metal-binding transcription factor [Transcription]

Probab=85.20  E-value=1.3  Score=36.98  Aligned_cols=36  Identities=17%  Similarity=0.257  Sum_probs=28.4

Q ss_pred             CCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          172 TGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       172 ~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      ..+..+-++.+..- +||.++|++||.++| |+..|+-
T Consensus       111 s~~~~e~v~v~a~a-~v~~eeAr~aleeag-Dl~~A~k  146 (153)
T COG4008         111 SEPPVEEVEVLADA-FVTPEEAREALEEAG-DLRTAMK  146 (153)
T ss_pred             CCCcHHHHHHHHHh-cCCHHHHHHHHHHcC-CHHHHHH
Confidence            34566677776665 599999999999995 9999863

>COG2103 Predicted sugar phosphate isomerase [General function prediction only]

Probab=84.48  E-value=1.2  Score=41.06  Aligned_cols=38  Identities=29%  Similarity=0.447  Sum_probs=33.5

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      +-+.-+.+||+-|||+|++|..+|++++|++=-||+-+
T Consensus       232 L~dRa~RIv~~aT~~~~~~A~~~L~~~~~~vK~AIvm~  269 (298)
T COG2103         232 LRDRAVRIVMEATGCSAEEAEALLEEAGGNVKLAIVML  269 (298)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHcCCccHhHHHHH
Confidence            45677899999999999999999999999998887654

>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed

Probab=82.40  E-value=1.7  Score=39.50  Aligned_cols=38  Identities=34%  Similarity=0.531  Sum_probs=30.4

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      +-..=+.+||+-+|||+++|.++|.+++|.+=-||+-+
T Consensus       234 l~~ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~a~~~~  271 (299)
T PRK05441        234 LVDRAVRIVMEATGVSREEAEAALEAADGSVKLAIVMI  271 (299)
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHhCCCcHHHHHHH
Confidence            34556778888999999999999999999887777643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	213
3mcb_A	54	Crystal Structure Of Nac Domains Of Human Nascent P		4e-17
3mce_A	61	Crystal Structure Of The Nac Domain Of Alpha Subuni		6e-16
3lkx_B	54	Human Nac Dimerization Domain Length = 54		2e-15

>pdb|3MCB|A Chain A, Crystal Structure Of Nac Domains Of Human Nascent Polypeptide- Associated Complex (Nac) Length = 54

Iteration: 1
 Score = 84.7 bits (208), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 37/52 (71%), Positives = 48/52 (92%)
Query: 75  AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 1   AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 52

>pdb|3MCE|A Chain A, Crystal Structure Of The Nac Domain Of Alpha Subunit Of Nascent Polypeptide-Associated Complex(Nac) Length = 61

Iteration: 1
 Score = 80.5 bits (197), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 46/49 (93%)
Query: 78  KLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 10  KLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 58

>pdb|3LKX|B Chain B, Human Nac Dimerization Domain Length = 54

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 33/47 (70%), Positives = 44/47 (93%)
Query: 80  GMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           G++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 2   GLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 48

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	213
3mcb_A	54	Nascent polypeptide-associated complex subunit Al;	9e-27
3mce_A	61	Nascent polypeptide-associated complex subunit Al;	8e-26
1tr8_A	102	Conserved protein (MTH177); chaperones, nascent po	8e-22
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>3mcb_A Nascent polypeptide-associated complex subunit Al; beta-barrel like structure, NAC, heterodimer, chaperone; 1.90A {Homo sapiens} PDB: 3lkx_B Length = 54

 Score = 96.3 bits (240), Expect = 9e-27
 Identities = 39/54 (72%), Positives = 50/54 (92%)

Query: 75  AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLS 128
           AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIEDLS
Sbjct: 1   AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLS 54

>3mce_A Nascent polypeptide-associated complex subunit Al; beta-barrel like structure, NAC, homodimer, chaperone; 2.40A {Homo sapiens} Length = 61

 Score = 94.1 bits (234), Expect = 8e-26
 Identities = 37/53 (69%), Positives = 48/53 (90%)

Query: 76  MLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLS 128
             KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIEDLS
Sbjct: 8   FSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLS 60

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis} Length = 102

 Score = 85.0 bits (210), Expect = 8e-22
 Identities = 35/142 (24%), Positives = 55/142 (38%), Gaps = 42/142 (29%)

Query: 72  SRKAMLKLGMKPVTGVSRVTIK-RTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLSTQ 130
           S    + + MK + GV  V IK + K I+    K +V +    +TY + G+A+   L  +
Sbjct: 2   SHMKQMGMDMKDLRGVEEVVIKLKRKEIIIKNPKVNVMEFMGQKTYQVTGKARERSLEAE 61

Query: 131 LQTQAAQQFRMPDMGSVMAKPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSR 190
           ++                                         +   DI+LVM Q G SR
Sbjct: 62  ME-----------------------------------------IPEDDIELVMNQTGASR 80

Query: 191 SKAVKALKTHNGDIVSAIMELT 212
             A +AL+   GD+  AIM L+
Sbjct: 81  EDATRALQETGGDLAEAIMRLS 102

>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 = 41.0 bits (95), Expect = 2e-04
 Identities = 23/128 (17%), Positives = 42/128 (32%), Gaps = 33/128 (25%)

Query: 95  TKNILFFISKP---DVFKSPNSE--TYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMA 149
            K+IL   SK     +  S ++   T  +F            Q +  Q+F    +  V+ 
Sbjct: 42  PKSIL---SKEEIDHIIMSKDAVSGTLRLF------WTLLSKQEEMVQKF----VEEVL- 87

Query: 150 KPD----ASSAAAGAQQDEEEEEVDETGVEP--RDIDLVMTQAGVSRSKAVKALKTHNGD 203
           + +     S      +Q      +     +    D   V  +  VSR +    L+     
Sbjct: 88  RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ-VFAKYNVSRLQPYLKLRQ---- 142

Query: 204 IVSAIMEL 211
              A++EL
Sbjct: 143 ---ALLEL 147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	213
1tr8_A	102	Conserved protein (MTH177); chaperones, nascent po	100.0
3mce_A	61	Nascent polypeptide-associated complex subunit Al;	99.87
3mcb_A	54	Nascent polypeptide-associated complex subunit Al;	99.86
3mcb_B	58	Transcription factor BTF3; beta-barrel like struct	99.22
3lkx_A	66	Transcription factor BTF3; beta-barrel, chaperone;	99.19
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	98.51
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	98.17
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	97.04
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	94.86
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	94.43
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	94.39
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	94.35
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	93.62
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	93.45
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	93.24
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	92.97
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	92.86
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	92.77
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	92.74
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	92.14
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	91.75
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	91.73
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	91.7
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	91.55
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	90.83
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	90.69
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	90.67
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	90.15
1v92_A	46	NSFL1 cofactor P47; 3-helix bundle, recombination;	89.95
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	89.44
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	88.9
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	88.11
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	88.09
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	87.25
2dal_A	62	Protein KIAA0794; FAS associted factor 1, UBA-like	86.63
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	85.12
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	84.55
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	84.47
2dzl_A	66	Protein FAM100B; UBA-like domain, structural genom	83.93
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	83.92
2dna_A	67	Unnamed protein product; ubiquitin associated doma	82.34
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	82.19

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis}

Probab=100.00  E-value=2.2e-36  Score=234.71  Aligned_cols=97  Identities=37%  Similarity=0.558  Sum_probs=81.7

Q ss_pred             HHHHHcCC--eecCCeeEEEEEecCceEEEecCCeEEe--eCCCceEEEecceeecchhhHHHHHHHHHhcCCCCCCCCC
Q 028127           74 KAMLKLGM--KPVTGVSRVTIKRTKNILFFISKPDVFK--SPNSETYVIFGEAKIEDLSTQLQTQAAQQFRMPDMGSVMA  149 (213)
Q Consensus        74 KamkKLGl--k~v~gV~rVtIrk~d~~~fVI~~PeV~k--~~gs~TYvIfGeak~ed~s~q~q~~aae~~~~~~~~~~~~  149 (213)
                      |||+||||  ++|+||+||+||+.+ .+|||++|+||+  ++|++||+|||+++++++.                     
T Consensus         2 k~lkKLGl~~~~I~gV~eV~i~k~d-~~iv~~~P~V~~~~~~~~~Ty~I~Ge~~~~d~~---------------------   59 (102)
T 1tr8_A            2 SHMKQMGMDMKDLRGVEEVVIKLKR-KEIIIKNPKVNVMEFMGQKTYQVTGKARERSLE---------------------   59 (102)
T ss_dssp             --------CCEEECCCCEEEEECSS-EEEEEESCEEEEEEETTEEEEEEESCEEEEEEE---------------------
T ss_pred             chHHHcCCCceeCCCcEEEEEEeCC-EEEEECCCEEEEEcCCCCcEEEEEcCceeeccc---------------------
Confidence            68999999  799999999999999 899999999996  8999999999999987640                     


Q ss_pred             CCCcchhhccCCCCccchhhccCCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhc
Q 028127          150 KPDASSAAAGAQQDEEEEEVDETGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELT  212 (213)
Q Consensus       150 ~~~~~~~~~~~~~~e~eeevde~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt  212 (213)
                                       +   +++|+++||+|||+||||||++|++||++||||||+|||.||
T Consensus        60 -----------------~---e~~i~~edi~lv~~q~~vs~~~A~~aL~~~~gDiv~Ai~~Lt  102 (102)
T 1tr8_A           60 -----------------A---EMEIPEDDIELVMNQTGASREDATRALQETGGDLAEAIMRLS  102 (102)
T ss_dssp             -----------------E---ECCCCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHC-
T ss_pred             -----------------c---cCCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence                             0   168999999999999999999999999999999999999997

>3mce_A Nascent polypeptide-associated complex subunit Al; beta-barrel like structure, NAC, homodimer, chaperone; 2.40A {Homo sapiens}

Probab=99.87  E-value=6e-23  Score=146.37  Aligned_cols=57  Identities=65%  Similarity=1.073  Sum_probs=51.0

Q ss_pred             HHHHHHcCCeecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchhh
Q 028127           73 RKAMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLST  129 (213)
Q Consensus        73 rKamkKLGlk~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s~  129 (213)
                      |++|+||||++|+||+||+|||++|.+|+|++|+||++++++||+|||+++.+|+++
T Consensus         5 ~kal~KLglk~v~gI~rVtirK~~~~lf~i~~PdV~ksp~snTyvVFGeak~ed~~q   61 (61)
T 3mce_A            5 SPEFSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLSQ   61 (61)
T ss_dssp             SCCGGGTTCEECSSEEEEEEEETTTEEEEESSCEEEEC---CEEEEESCEEEECCC-
T ss_pred             HHHHHHcCCeECCCEEEEEEEecCCEEEEECCCcEEEcCCCCeEEEEcccccccCCC
Confidence            467999999999999999999999999999999999999999999999999999863

>3mcb_A Nascent polypeptide-associated complex subunit Al; beta-barrel like structure, NAC, heterodimer, chaperone; 1.90A {Homo sapiens} PDB: 3lkx_B

Probab=99.86  E-value=3.2e-22  Score=139.52  Aligned_cols=54  Identities=72%  Similarity=1.169  Sum_probs=51.9

Q ss_pred             HHHHcCCeecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchh
Q 028127           75 AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLS  128 (213)
Q Consensus        75 amkKLGlk~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s  128 (213)
                      +|+||||++|+||+||+|||++|.+|+|++|+||++++++||+|||+++.+|++
T Consensus         1 al~KLglk~v~gI~rVti~K~~~~lf~i~~P~V~ksp~s~TyvVfGeak~ed~~   54 (54)
T 3mcb_A            1 AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIEDLS   54 (54)
T ss_dssp             CGGGGTCEECTTEEEEEEESSSSEEEEESSCEEEECTTSSEEEEESCEEEEECC
T ss_pred             CccccCCEECCCEEEEEEEeCCCEEEEECCCcEEEcCCCCeEEEEcceeeccCC
Confidence            589999999999999999999999999999999999999999999999999874

>3mcb_B Transcription factor BTF3; beta-barrel like structure, NAC, heterodimer, chaperone; 1.90A {Homo sapiens}

Probab=99.22  E-value=2.2e-11  Score=85.91  Aligned_cols=48  Identities=21%  Similarity=0.431  Sum_probs=45.2

Q ss_pred             eecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchhh
Q 028127           82 KPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLST  129 (213)
Q Consensus        82 k~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s~  129 (213)
                      ..|+||+||+|+|.+|.+|+|++|.|+.++.+|||+|+|.+++++++.
T Consensus         2 ~~i~gIeEVnmfk~dg~vihF~nPkVqaS~~aNTfvv~G~~e~K~l~e   49 (58)
T 3mcb_B            2 NNISGIEEVNMFTNQGTVIHFNNPKVQASLAANTFTITGHAETKQLTE   49 (58)
T ss_dssp             CEECCCCEEEEEETTSEEEEEESCEEEEETTTTEEEEESCEEEEEGGG
T ss_pred             cccCCeeEEEEEecCCEEEEecCcceEEeeccceEEEecCCeeeEHHH
Confidence            478999999999999999999999999999999999999999998764

>3lkx_A Transcription factor BTF3; beta-barrel, chaperone; 2.50A {Homo sapiens}

Probab=99.19  E-value=4.2e-11  Score=86.41  Aligned_cols=48  Identities=21%  Similarity=0.431  Sum_probs=44.3

Q ss_pred             eecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecceeecchhh
Q 028127           82 KPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIEDLST  129 (213)
Q Consensus        82 k~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGeak~ed~s~  129 (213)
                      ..|+||+||+|+|.+|++|+|++|.|+.++.+|||+|+|.+++++++.
T Consensus         2 ~~i~gIeEVnmfk~dg~vihF~nPkVqaS~~aNT~vv~G~~e~K~l~e   49 (66)
T 3lkx_A            2 NNISGIEEVNMFTNQGTVIHFNNPKVQASLAANTFTITGHAETKQLTE   49 (66)
T ss_dssp             EECCCEEEEEEEETTSEEEEEESCEEEEECC-CEEEEESCEEEEEGGG
T ss_pred             cccCCeeEEEEEecCCEEEEecCcceEEeeccCeeEecCCCEEeEHHH
Confidence            578999999999999999999999999999999999999999998764

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.51  E-value=5.9e-08  Score=75.46  Aligned_cols=36  Identities=28%  Similarity=0.409  Sum_probs=34.6

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      +++|++||++||||+++|++||.++||||..||+.|
T Consensus        40 eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~L   75 (104)
T 1wj7_A           40 EEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVL   75 (104)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            469999999999999999999999999999999988

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=98.17  E-value=1.7e-06  Score=61.90  Aligned_cols=41  Identities=27%  Similarity=0.266  Sum_probs=38.3

Q ss_pred             CCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhhc
Q 028127          172 TGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELT  212 (213)
Q Consensus       172 ~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~Lt  212 (213)
                      ..|+.++|+.+.++||++...+++||.++||||..||.-|.
T Consensus         6 ~~it~~~Vk~LRe~TGag~~dcKkAL~e~~GDi~~Ai~~Lr   46 (64)
T 2cp9_A            6 SGSSKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLH   46 (64)
T ss_dssp             SCCCCHHHHHHHHHHCCCHHHHHHHHHHHTSCHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            35889999999999999999999999999999999998873

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=97.04  E-value=0.00061  Score=42.69  Aligned_cols=35  Identities=29%  Similarity=0.342  Sum_probs=30.4

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      ++.|..+|+. |.||+.|++||+.++||+-.|+--|
T Consensus         5 ~~~i~~L~~m-Gf~~~~a~~AL~~~~~n~e~A~~~L   39 (40)
T 1z96_A            5 NSKIAQLVSM-GFDPLEAAQALDAANGDLDVAASFL   39 (40)
T ss_dssp             HHHHHHHHHT-TCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3468889987 9999999999999999998887544

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=94.86  E-value=0.015  Score=37.21  Aligned_cols=33  Identities=21%  Similarity=0.236  Sum_probs=27.2

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      ++.|..+|+ .|.+|+.|++||+.++||+=.|+=
T Consensus         5 e~~i~~L~~-MGF~~~~a~~AL~~~~~n~e~A~~   37 (43)
T 2g3q_A            5 SLAVEELSG-MGFTEEEAHNALEKCNWDLEAATN   37 (43)
T ss_dssp             HHHHHHHHT-TTSCHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHH-cCCCHHHHHHHHHHhCcCHHHHHH
Confidence            345777776 699999999999999999976653

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=94.43  E-value=0.045  Score=37.61  Aligned_cols=29  Identities=17%  Similarity=0.275  Sum_probs=26.0

Q ss_pred             ccHHHHHhhhCCCHHHHHHHHHhcCCcHHH
Q 028127          177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVS  206 (213)
Q Consensus       177 eDIeLVM~QagvSRekAikALke~nGDIV~  206 (213)
                      +-|+-.|+. |.||+.|++||+-++|||--
T Consensus        13 ~~Ia~Lm~m-GFsr~~ai~AL~~a~nnve~   41 (52)
T 2ooa_A           13 AKIAKLMGE-GYAFEEVKRALEIAQNNVEV   41 (52)
T ss_dssp             HHHHHHHHT-TCCHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHHHHc-CCCHHHHHHHHHHhCCCHHH
Confidence            578888887 99999999999999999843

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=94.39  E-value=0.049  Score=37.57  Aligned_cols=29  Identities=34%  Similarity=0.406  Sum_probs=25.8

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHH
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSA  207 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~A  207 (213)
                      -|+..|++ |.||+.|++||.-++|||--|
T Consensus        12 ~I~~L~~l-GF~r~~ai~AL~~a~nnve~A   40 (53)
T 2d9s_A           12 EIERLMSQ-GYSYQDIQKALVIAHNNIEMA   40 (53)
T ss_dssp             HHHHHHHH-TCCHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHc-CCCHHHHHHHHHHhcCCHHHH
Confidence            39999987 999999999999999999443

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=94.35  E-value=0.045  Score=38.31  Aligned_cols=35  Identities=17%  Similarity=0.357  Sum_probs=29.7

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      ++++.|+.+|+ .|.+|+.|++||+.++||+=.|+=
T Consensus         8 ~~~~~I~~L~~-MGF~~~~a~~AL~~~~~nve~A~e   42 (63)
T 1wji_A            8 VDEKALKHITE-MGFSKEASRQALMDNGNNLEAALN   42 (63)
T ss_dssp             SCHHHHHHHHT-TTCCHHHHHHHHHHTTSCHHHHHH
T ss_pred             CCHHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHH
Confidence            56777888876 699999999999999999866654

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=93.62  E-value=0.065  Score=37.11  Aligned_cols=34  Identities=26%  Similarity=0.435  Sum_probs=28.6

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      ++++-|..+|+ .|.+|+.|++||+.++|++=.|+
T Consensus         8 ~~~~~v~~L~~-MGF~~~~a~~AL~~t~~nve~A~   41 (63)
T 2dak_A            8 PPEDCVTTIVS-MGFSRDQALKALRATNNSLERAV   41 (63)
T ss_dssp             CCHHHHHHHHH-HTCCHHHHHHHHHHTTSCSHHHH
T ss_pred             CCHHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHH
Confidence            56677887777 79999999999999999975555

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=93.45  E-value=0.05  Score=38.71  Aligned_cols=32  Identities=19%  Similarity=0.312  Sum_probs=26.9

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      ++.|+.|+. .|.|+..|++|||.++|+|-.|.
T Consensus        20 ~e~V~~Lvs-MGFs~~qA~kALKat~~NvErAa   51 (63)
T 1wgn_A           20 RQCVETVVN-MGYSYECVLRAMKKKGENIEQIL   51 (63)
T ss_dssp             HHHHHHHHH-HHCCHHHHHHHHHHHCSCHHHHH
T ss_pred             HHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHH
Confidence            356777774 59999999999999999997764

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=93.24  E-value=0.092  Score=37.66  Aligned_cols=37  Identities=30%  Similarity=0.409  Sum_probs=30.9

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      .++++.|..+|+ .|.+|..|++||+.++|++=.|+=-
T Consensus        27 ~~~~~~v~~L~~-MGF~~~~a~~AL~~t~~nve~Ave~   63 (73)
T 1wiv_A           27 DIDQSSVDTLLS-FGFAEDVARKALKASGGDIEKATDW   63 (73)
T ss_dssp             SSCHHHHHHHHH-HTCCHHHHHHHHHHTTSCHHHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHH
Confidence            467778888775 6999999999999999999777643

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=92.97  E-value=0.099  Score=37.79  Aligned_cols=36  Identities=19%  Similarity=0.316  Sum_probs=30.0

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      ..++.|..+|+ .|.+|+.|++||+.++||+=.|+=-
T Consensus        28 ~~ee~I~~L~e-MGF~r~~a~~AL~~~~~nve~Ave~   63 (73)
T 1vg5_A           28 ASEEQIQKLVA-MGFDRTQVEVALAAADDDLTVAVEI   63 (73)
T ss_dssp             CCHHHHHHHHT-TTCCHHHHHHHHHHHTSCHHHHHHH
T ss_pred             ccHHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHH
Confidence            34667888886 6999999999999999999777643

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=92.86  E-value=0.14  Score=35.73  Aligned_cols=35  Identities=31%  Similarity=0.462  Sum_probs=29.4

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhc-CCcHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTH-NGDIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~-nGDIV~AI  208 (213)
                      .+++.-|..+|+ .|.+|..|++||+.+ ||++=.|+
T Consensus         7 ~~~~~~v~~L~~-MGF~~~~a~~AL~~t~~~nve~A~   42 (64)
T 1whc_A            7 GAELTALESLIE-MGFPRGRAEKALALTGNQGIEAAM   42 (64)
T ss_dssp             CCCCCHHHHHHT-TTCCHHHHHHHHHHHTSCCHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHhcCCCHHHHH
Confidence            467778888886 799999999999999 79976554

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=92.77  E-value=0.11  Score=38.48  Aligned_cols=35  Identities=20%  Similarity=0.274  Sum_probs=29.6

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      .++++-|..+|+ .|.+|..|++||+.++||+=.|+
T Consensus        27 ~~~ee~I~~Lv~-MGF~~~~A~~AL~~t~gdve~A~   61 (83)
T 1veg_A           27 SPSQESINQLVY-MGFDTVVAEAALRVFGGNVQLAA   61 (83)
T ss_dssp             CCCHHHHHHHHH-HSCCHHHHHHHHHHTTTCHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHH
Confidence            346778888886 59999999999999999986665

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=92.74  E-value=0.15  Score=35.66  Aligned_cols=34  Identities=26%  Similarity=0.492  Sum_probs=28.2

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCC-cHHHHH
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNG-DIVSAI  208 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nG-DIV~AI  208 (213)
                      +++..|..+|+ .|.+|+.|++||+.++| ++=.|+
T Consensus        18 ~~e~~i~~L~~-MGF~~~~a~~AL~~t~~~nve~A~   52 (64)
T 2cpw_A           18 KHGSALDVLLS-MGFPRARAQKALASTGGRSVQTAC   52 (64)
T ss_dssp             SCCCHHHHHHH-HTCCHHHHHHHHHHTTTSCHHHHH
T ss_pred             CCHHHHHHHHH-cCCCHHHHHHHHHHcCCCCHHHHH
Confidence            45667887776 79999999999999998 886654

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.14  E-value=0.17  Score=37.27  Aligned_cols=35  Identities=20%  Similarity=0.326  Sum_probs=30.1

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      .++++-|..+|+ .|.+|..|++||+.++|++=.|+
T Consensus        27 ~~~e~~i~~L~~-MGF~~~~a~~AL~~t~~nve~A~   61 (83)
T 2dai_A           27 RVDEAALRQLTE-MGFPENRATKALQLNHMSVPQAM   61 (83)
T ss_dssp             SCCHHHHHHHHH-HTCCHHHHHHHHHHTTSCHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHH
Confidence            467788888886 79999999999999999986665

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=91.75  E-value=0.12  Score=34.14  Aligned_cols=32  Identities=22%  Similarity=0.322  Sum_probs=25.7

Q ss_pred             ccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       177 eDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      +.|..+|+ .|.+|+.|++||+.++||+=.|+=
T Consensus        10 ~~i~~L~~-MGF~~~~a~~AL~~~~~n~e~A~e   41 (49)
T 1ify_A           10 TMLTEIMS-MGYERERVVAALRASYNNPHRAVE   41 (49)
T ss_dssp             HHHHHHHH-TTCCHHHHHHHHHTTTSCSHHHHH
T ss_pred             HHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHH
Confidence            35655554 599999999999999999877763

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=91.73  E-value=0.18  Score=33.75  Aligned_cols=35  Identities=29%  Similarity=0.472  Sum_probs=28.8

Q ss_pred             cccHHHHHhhhCC-CHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQAGV-SRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~Qagv-SRekAikALke~nGDIV~AIM~L  211 (213)
                      +..|..+++ .|. +|..|++||+.++||+=.||--|
T Consensus        13 ~~~l~~L~~-MGF~~~~~~~~AL~~t~gn~e~A~e~L   48 (52)
T 2jy5_A           13 QQQLEQLSA-MGFLNREANLQALIATGGDINAAIERL   48 (52)
T ss_dssp             HHHHHHHHH-TTCCCHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHH-cCCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            446777665 588 99999999999999998887655

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=91.70  E-value=0.17  Score=32.85  Aligned_cols=34  Identities=26%  Similarity=0.467  Sum_probs=28.0

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      .++++.|..+|+ .|.+|+.|++||+.++ ++=.|+
T Consensus         7 ~~~~~~v~~L~~-MGF~~~~a~~AL~~~~-n~e~A~   40 (47)
T 2ekk_A            7 GVNQQQLQQLMD-MGFTREHAMEALLNTS-TMEQAT   40 (47)
T ss_dssp             SSCHHHHHHHHH-HHCCHHHHHHHHHHSC-SHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHcC-CHHHHH
Confidence            467778888887 7999999999999994 765554

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=91.55  E-value=0.18  Score=33.81  Aligned_cols=33  Identities=30%  Similarity=0.489  Sum_probs=26.8

Q ss_pred             cHHHHHhhhCC-CHHHHHHHHHhcCCcHHHHHhhh
Q 028127          178 DIDLVMTQAGV-SRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       178 DIeLVM~Qagv-SRekAikALke~nGDIV~AIM~L  211 (213)
                      .|..+++ .|. +|..|++||+.++||+=.||--|
T Consensus        14 ~l~~L~~-MGF~~~~~~~~AL~~t~gnve~Ave~L   47 (53)
T 2knz_A           14 QLEQLNS-MGFINREANLQALIATGGDINAAIERL   47 (53)
T ss_dssp             HHHHHHT-TTCCCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHH-cCCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            4666664 588 99999999999999998887544

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=90.83  E-value=0.23  Score=35.61  Aligned_cols=35  Identities=17%  Similarity=0.192  Sum_probs=28.1

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCC-cHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNG-DIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nG-DIV~AI  208 (213)
                      .++++-|..+|+ .|.+|+.|++||+.++| ++=.|+
T Consensus         7 ~~~e~~v~~L~~-MGF~~~~a~~AL~~t~n~~ve~A~   42 (74)
T 2dag_A            7 GLDESVIIQLVE-MGFPMDACRKAVYYTGNSGAEAAM   42 (74)
T ss_dssp             SSCHHHHHHHHH-HSCCHHHHHHHHHHHTSCCHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHhCCCCHHHHH
Confidence            356677777776 79999999999999997 775554

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=90.69  E-value=0.39  Score=33.54  Aligned_cols=35  Identities=23%  Similarity=0.360  Sum_probs=28.7

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCC-cHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNG-DIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nG-DIV~AI  208 (213)
                      ..+++.|.-+|+ .|.+|+.|++||..++| ++=.|+
T Consensus         7 ~~~e~~v~~L~~-MGF~~~~a~~AL~~t~n~~~e~A~   42 (64)
T 2crn_A            7 GSSPSLLEPLLA-MGFPVHTALKALAATGRKTAEEAL   42 (64)
T ss_dssp             CCSCSSHHHHHH-TSCCHHHHHHHHHHHTSCCHHHHH
T ss_pred             CCCHHHHHHHHH-cCCCHHHHHHHHHHhCCCCHHHHH
Confidence            456778888877 79999999999999987 775554

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=90.67  E-value=0.28  Score=32.18  Aligned_cols=33  Identities=21%  Similarity=0.333  Sum_probs=25.4

Q ss_pred             cHHHHHhhhCCC-HHHHHHHHHhcCCcHHHHHhhh
Q 028127          178 DIDLVMTQAGVS-RSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       178 DIeLVM~QagvS-RekAikALke~nGDIV~AIM~L  211 (213)
                      -|.-++ ..|.+ |..+++||+.++||+=.||--|
T Consensus        10 ~i~~L~-~MGF~d~~~~~~AL~~~~gnv~~Ave~L   43 (46)
T 2bwb_A           10 QLRQLN-DMGFFDFDRNVAALRRSGGSVQGALDSL   43 (46)
T ss_dssp             HHHHHH-HTTCCCHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHH-HcCCCcHHHHHHHHHHhCCCHHHHHHHH
Confidence            454444 45875 7788999999999998888655

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=90.15  E-value=0.21  Score=33.86  Aligned_cols=34  Identities=21%  Similarity=0.370  Sum_probs=25.7

Q ss_pred             ccHHHHHhhhCCCHHH-HHHHHHhcCCcHHHHHhhh
Q 028127          177 RDIDLVMTQAGVSRSK-AVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       177 eDIeLVM~QagvSRek-AikALke~nGDIV~AIM~L  211 (213)
                      .-|..++ ..|.++.. +++||+.++|||=.||--|
T Consensus        11 ~~l~~L~-~MGF~d~~~n~~AL~~~~Gdv~~Ave~L   45 (54)
T 2dah_A           11 VQLEQLR-SMGFLNREANLQALIATGGDVDAAVEKL   45 (54)
T ss_dssp             HHHHHHH-HHTCCCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHH-HcCCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            3465555 45997765 5999999999998888655

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3

Probab=89.95  E-value=0.33  Score=30.85  Aligned_cols=33  Identities=15%  Similarity=0.177  Sum_probs=29.0

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      -|.-.++=|||++..|+..|..+++||-.||-.
T Consensus         8 ~i~~F~~iTg~~~~~A~~~L~~~~wdle~Ai~~   40 (46)
T 1v92_A            8 ALREFVAVTGAEEDRARFFLESAGWDLQIALAS   40 (46)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHH
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHH
Confidence            467778889999999999999999999988743

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=89.44  E-value=0.41  Score=32.07  Aligned_cols=30  Identities=33%  Similarity=0.376  Sum_probs=26.1

Q ss_pred             ccHHHHHhhhCCCHHHHHHHHHhcCCcHHHH
Q 028127          177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSA  207 (213)
Q Consensus       177 eDIeLVM~QagvSRekAikALke~nGDIV~A  207 (213)
                      .-|...|++ |.||+.|++||--+++||--|
T Consensus         6 ~~I~~L~s~-Gf~~~~~~rAL~ia~Nnie~A   35 (46)
T 2oo9_A            6 SEIENLMSQ-GYSYQDIQKALVIAQNNIEMA   35 (46)
T ss_dssp             HHHHHHHHT-TBCHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHc-CCCHHHHHHHHHHhhccHHHH
Confidence            357888887 999999999999999999654

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=88.90  E-value=0.41  Score=32.96  Aligned_cols=33  Identities=21%  Similarity=0.324  Sum_probs=25.9

Q ss_pred             cHHHHHhhhCCC-HHHHHHHHHhcCCcHHHHHhhh
Q 028127          178 DIDLVMTQAGVS-RSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       178 DIeLVM~QagvS-RekAikALke~nGDIV~AIM~L  211 (213)
                      -|..+++ .|.+ |..+++||+.++|||=.||--|
T Consensus        20 qi~~L~~-MGF~d~~~~~~AL~~~~gnve~Ave~L   53 (58)
T 1wr1_B           20 QLRQLND-MGFFDFDRNVAALRRSGGSVQGALDSL   53 (58)
T ss_dssp             HHHHHHH-HTCCCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHH-cCCCcHHHHHHHHHHhCCCHHHHHHHH
Confidence            4655554 5875 8888999999999998888655

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=88.11  E-value=0.41  Score=33.26  Aligned_cols=30  Identities=30%  Similarity=0.354  Sum_probs=26.2

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHH
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVS  206 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~  206 (213)
                      +.-|...|++ |.||+.|++||.-++|||--
T Consensus         8 e~~Ia~L~sm-Gfsr~da~~AL~ia~Ndv~~   37 (56)
T 2juj_A            8 SSEIENLMSQ-GYSYQDIQKALVIAQNNIEM   37 (56)
T ss_dssp             HHHHHHHHTT-TCCHHHHHHHHHHTTTCSHH
T ss_pred             hHHHHHHHHc-CCCHHHHHHHHHHhcccHHH
Confidence            3478888987 99999999999999999844

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=88.09  E-value=0.45  Score=36.65  Aligned_cols=37  Identities=19%  Similarity=0.370  Sum_probs=30.4

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      +.+.-|.-+|+ .|++|..|++||+.++||+-.|+=-|
T Consensus        77 ~~e~~v~~L~~-MGF~~~~a~~AL~~~~~~~e~A~e~L  113 (126)
T 2lbc_A           77 PPEEIVAIITS-MGFQRNQAIQALRATNNNLERALDWI  113 (126)
T ss_dssp             CCHHHHHHHHH-HTSCHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             cCHHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            56667887776 79999999999999999997776443

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=87.25  E-value=0.67  Score=34.16  Aligned_cols=33  Identities=30%  Similarity=0.359  Sum_probs=27.5

Q ss_pred             CcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          175 EPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       175 ~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      +++-|..+++ .|.+|..|++||+.++|++=.|+
T Consensus        21 n~~~I~qL~~-MGF~~~~a~~AL~~~n~n~e~A~   53 (85)
T 2dkl_A           21 MSRLIKQLTD-MGFPREPAEEALKSNNMNLDQAM   53 (85)
T ss_dssp             HHHHHHHHHH-HTCCHHHHHHHHHHTTSCHHHHH
T ss_pred             CHHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHH
Confidence            4556776665 69999999999999999997776

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=86.63  E-value=0.84  Score=31.42  Aligned_cols=33  Identities=24%  Similarity=0.222  Sum_probs=29.9

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      -|.-.|.=|||++..|+..|..+++||-.||-.
T Consensus        18 ~i~qF~~iTg~~~~~A~~~Le~~~WnLe~Av~~   50 (62)
T 2dal_A           18 LIQQFTTITGASESVGKHMLEACNNNLEMAVTM   50 (62)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHTTTSCHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            588888999999999999999999999999854

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=85.12  E-value=0.99  Score=33.04  Aligned_cols=36  Identities=14%  Similarity=0.164  Sum_probs=29.1

Q ss_pred             CCCCcccHHHHHhhhCCCHHHHHHHHHhcC-CcHHHHH
Q 028127          172 TGVEPRDIDLVMTQAGVSRSKAVKALKTHN-GDIVSAI  208 (213)
Q Consensus       172 ~gi~eeDIeLVM~QagvSRekAikALke~n-GDIV~AI  208 (213)
                      ..++++-|..+|+ .|.+|..|++||+.++ |++=.|+
T Consensus        26 ~~~~e~~v~~L~~-MGF~~~~a~~AL~~t~n~n~e~A~   62 (84)
T 1vek_A           26 PVANEEIVAQLVS-MGFSQLHCQKAAINTSNAGVEEAM   62 (84)
T ss_dssp             CCCCHHHHHHHHH-HTCCHHHHHHHHHHTTTCCHHHHH
T ss_pred             CCCCHHHHHHHHH-cCCCHHHHHHHHHHHcCCCHHHHH
Confidence            3467788888886 7999999999999985 6886554

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=84.55  E-value=1  Score=32.57  Aligned_cols=35  Identities=29%  Similarity=0.476  Sum_probs=27.3

Q ss_pred             cccHHHHHhhhCC-CHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQAGV-SRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~Qagv-SRekAikALke~nGDIV~AIM~L  211 (213)
                      +.-|..+++ .|. .|..+++||+.++|||=.||=-|
T Consensus        30 e~qi~qL~e-MGF~dr~~~~~AL~~t~Gnve~Ave~L   65 (74)
T 1vej_A           30 QQELEELKA-LGFANRDANLQALVATDGDIHAAIEML   65 (74)
T ss_dssp             HHHHHHHHH-HTCCCHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHH-cCCCcHHHHHHHHHHhCCCHHHHHHHH
Confidence            345666664 587 58999999999999998887554

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=84.47  E-value=0.72  Score=35.81  Aligned_cols=24  Identities=25%  Similarity=0.255  Sum_probs=21.7

Q ss_pred             hCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          186 AGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       186 agvSRekAikALke~nGDIV~AIM  209 (213)
                      .|.++..|++||+.||||+=.|+=
T Consensus        86 MGF~~~~a~~AL~~~~nd~erAle  109 (118)
T 4ae4_A           86 MGFELKDIKEVLLLHNNDQDNALE  109 (118)
T ss_dssp             TTCCHHHHHHHHHHTTTCHHHHHH
T ss_pred             cCCCHHHHHHHHHHcCCCHHHHHH
Confidence            499999999999999999988863

>2dzl_A Protein FAM100B; UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.93  E-value=1.3  Score=31.04  Aligned_cols=33  Identities=18%  Similarity=0.224  Sum_probs=29.7

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      -|.-.|.-|||++..|+..|..+++||-.||-.
T Consensus        20 ~i~qF~~iTg~~~~~A~~~Le~~~WdLe~Al~~   52 (66)
T 2dzl_A           20 MINQFVLAAGCAADQAKQLLQAAHWQFETALST   52 (66)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHTTTTCHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            478888999999999999999999999988754

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=83.92  E-value=0.91  Score=30.42  Aligned_cols=36  Identities=25%  Similarity=0.274  Sum_probs=30.3

Q ss_pred             cccHHHHHhhh-CCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQA-GVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~Qa-gvSRekAikALke~nGDIV~AIM~L  211 (213)
                      +++|.++++=. +|++..++.+|+.+|||+=.||-.|
T Consensus         5 e~~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~L   41 (49)
T 1otr_A            5 ESKLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLL   41 (49)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            35778888775 9999999999999999998777554

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=82.34  E-value=1  Score=32.06  Aligned_cols=33  Identities=24%  Similarity=0.447  Sum_probs=23.7

Q ss_pred             cHHHHHhhhCC-CHHHHHHHHHhcCCcHHHHHhhh
Q 028127          178 DIDLVMTQAGV-SRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       178 DIeLVM~Qagv-SRekAikALke~nGDIV~AIM~L  211 (213)
                      -|..+++ .|. .|...++||+.++|||-.||=-|
T Consensus        22 ql~qL~~-MGF~d~~an~~AL~at~Gnve~Ave~L   55 (67)
T 2dna_A           22 EMECLQA-MGFVNYNANLQALIATDGDTNAAIYKL   55 (67)
T ss_dssp             HHHHHHH-HTCCCHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHH-cCCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            4444443 475 45566999999999998888554

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=82.19  E-value=0.92  Score=31.15  Aligned_cols=25  Identities=36%  Similarity=0.594  Sum_probs=22.9

Q ss_pred             CC-CHHHHHHHHHhcCCcHHHHHhhh
Q 028127          187 GV-SRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       187 gv-SRekAikALke~nGDIV~AIM~L  211 (213)
                      |. .+..-++||+.+||+|=.||..|
T Consensus        20 GF~D~~~N~~aL~~~~gnv~~aI~~L   45 (54)
T 2cp8_A           20 GFCDRQLNLRLLKKHNYNILQVVTEL   45 (54)
T ss_dssp             TCCCHHHHHHHHTTTTTCHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            54 89999999999999999999887

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	213
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	95.49
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	94.5
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	94.49
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	94.28
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	94.25
d1wj7a1	91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	93.52
d1v92a_	46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	93.3
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	92.81
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	92.68
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	92.61
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	92.4
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	89.17
d1eeja2	60	Disulfide bond isomerase, DsbC, N-terminal domain	88.01
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	87.62
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	86.67
d2cosa1	41	Serine/threonine protein kinase LATS2 {Mouse (Mus	82.32

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.49  E-value=0.0083  Score=39.82  Aligned_cols=39  Identities=26%  Similarity=0.314  Sum_probs=36.2

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      .|+.++|+-+=++||++--...+||.+++|||-.||--|
T Consensus         2 ~is~~~iK~LR~~Tgag~~dCKkAL~e~~gD~ekA~e~L   40 (54)
T d1efub3           2 EITASLVKELRERTGAGMMDCKKALTEANGDIELAIENM   40 (54)
T ss_dssp             CCCHHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            478889999999999999999999999999999999766

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.50  E-value=0.0096  Score=37.16  Aligned_cols=32  Identities=25%  Similarity=0.369  Sum_probs=25.9

Q ss_pred             HHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          179 IDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       179 IeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      |.-+|+ .|.+|+.|++||+.++|++-.||=-|
T Consensus         8 i~~L~~-MGF~~~~a~~AL~~~~~N~e~A~~~L   39 (41)
T d1oqya1           8 LTEIMS-MGYERERVVAALRASYNNPHRAVEYL   39 (41)
T ss_dssp             HHHHHT-TTCCSHHHHHHHHHSCSSTTHHHHTT
T ss_pred             HHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            444444 69999999999999999998887544

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.49  E-value=0.018  Score=39.77  Aligned_cols=36  Identities=31%  Similarity=0.460  Sum_probs=30.8

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      .++++-|..+|+ .|.||+.|++||+.++|++=.||=
T Consensus        27 ~~d~~~i~~L~~-MGF~~~~a~~AL~~~~~n~e~Av~   62 (73)
T d1wiva_          27 DIDQSSVDTLLS-FGFAEDVARKALKASGGDIEKATD   62 (73)
T ss_dssp             SSCHHHHHHHHH-HTCCHHHHHHHHHHTTSCHHHHHH
T ss_pred             CCCHHHHHHHHh-cCCCHHHHHHHHHHcCCCHHHHHH
Confidence            467778888885 799999999999999999877663

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=94.28  E-value=0.017  Score=36.63  Aligned_cols=23  Identities=30%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             hCCCHHHHHHHHHhcCCcHHHHH
Q 028127          186 AGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       186 agvSRekAikALke~nGDIV~AI  208 (213)
                      .|.++++|++||+++|+|+-.|.
T Consensus        14 MGF~e~~A~~AL~k~~wnleaAt   36 (43)
T d2g3qa1          14 MGFTEEEAHNALEKCNWDLEAAT   36 (43)
T ss_dssp             TTSCHHHHHHHHHHHTSCHHHHH
T ss_pred             cCCCHHHHHHHHHHcCCCHHHHH
Confidence            49999999999999999997665

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.25  E-value=0.022  Score=38.21  Aligned_cols=37  Identities=19%  Similarity=0.408  Sum_probs=31.5

Q ss_pred             CCCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          172 TGVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       172 ~gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      ++++++-|..+|+- |.+|..|++||+.++|++-.|+-
T Consensus         6 ~~~d~~~v~~L~~M-GF~~~~a~~AL~~~~~~~e~A~~   42 (63)
T d1wjia_           6 SGVDEKALKHITEM-GFSKEASRQALMDNGNNLEAALN   42 (63)
T ss_dssp             CSSCHHHHHHHHTT-TCCHHHHHHHHHHTTSCHHHHHH
T ss_pred             CccCHHHHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHH
Confidence            46788888887765 99999999999999999977764

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.52  E-value=0.038  Score=40.08  Aligned_cols=34  Identities=26%  Similarity=0.398  Sum_probs=30.2

Q ss_pred             ccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          177 RDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       177 eDIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      +=|+.||+=||||.++|+=||-.+|||+-.||=-
T Consensus        34 ~kVkql~e~T~rsede~~~ALhDcn~D~~~AIn~   67 (91)
T d1wj7a1          34 EKVKQLIDITGKNQDECVIALHDCNGDVNRAINV   67 (91)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHhcCCccHHHHHHH
Confidence            4688999999999999999999999999777643

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TAP-C domain-like
domain: NSFL1 (p97 ATPase) cofactor p47, UBA-like domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.30  E-value=0.039  Score=34.91  Aligned_cols=33  Identities=15%  Similarity=0.177  Sum_probs=29.3

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      =|.-.|+=||||++.|+.-|..+|+||=.||-.
T Consensus         8 lI~qF~~iTg~~~~~A~~~Le~~~w~Le~Ai~~   40 (46)
T d1v92a_           8 ALREFVAVTGAEEDRARFFLESAGWDLQIALAS   40 (46)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHH
Confidence            466778889999999999999999999999854

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=92.81  E-value=0.071  Score=35.37  Aligned_cols=36  Identities=28%  Similarity=0.195  Sum_probs=31.1

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      .+-|+-+=++||++--...+||.++||||-.||--|
T Consensus         5 ~~lvk~LRe~Tga~~~dcKkAL~e~~gD~ekA~e~L   40 (56)
T d1xb2b1           5 KELLMKLRRKTGYSFINCKKALETCGGDLKQAESWL   40 (56)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            345666678999999999999999999999998766

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.68  E-value=0.07  Score=35.80  Aligned_cols=36  Identities=28%  Similarity=0.445  Sum_probs=29.4

Q ss_pred             CCCCcccHHHHHhhhCCCHHHHHHHHHhcCC-cHHHHH
Q 028127          172 TGVEPRDIDLVMTQAGVSRSKAVKALKTHNG-DIVSAI  208 (213)
Q Consensus       172 ~gi~eeDIeLVM~QagvSRekAikALke~nG-DIV~AI  208 (213)
                      .+++++-|.-+++ .|+||+.|++||+.++| ++=.|+
T Consensus         6 s~~d~~~l~~L~~-MGF~~~~a~~AL~~t~n~~~e~A~   42 (64)
T d1whca_           6 SGAELTALESLIE-MGFPRGRAEKALALTGNQGIEAAM   42 (64)
T ss_dssp             CCCCCCHHHHHHT-TTCCHHHHHHHHHHHTSCCHHHHH
T ss_pred             CccCHHHHHHHHH-cCCCHHHHHHHHHHhCCCCHHHHH
Confidence            4677788888874 79999999999999977 775554

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.61  E-value=0.07  Score=34.90  Aligned_cols=34  Identities=21%  Similarity=0.135  Sum_probs=29.3

Q ss_pred             cHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHhhh
Q 028127          178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMEL  211 (213)
Q Consensus       178 DIeLVM~QagvSRekAikALke~nGDIV~AIM~L  211 (213)
                      .|+-+=++||++--...+||.++||||-.||=-|
T Consensus         5 lvK~LR~~Tga~~~dcKkAL~e~~gD~ekA~e~L   38 (52)
T d1aipc1           5 LIKKLREATGAGMMDVKRALEDAGWDEEKAVQLL   38 (52)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4555668999999999999999999999998544

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=92.40  E-value=0.06  Score=37.04  Aligned_cols=35  Identities=20%  Similarity=0.375  Sum_probs=29.5

Q ss_pred             CCCcccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHH
Q 028127          173 GVEPRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAI  208 (213)
Q Consensus       173 gi~eeDIeLVM~QagvSRekAikALke~nGDIV~AI  208 (213)
                      .++++.|..+|+ .|.+|+.|++||+.++|+|=.||
T Consensus        27 ~~~ee~i~~L~~-MGF~~~~a~~AL~~~~~n~e~A~   61 (73)
T d1vg5a_          27 AASEEQIQKLVA-MGFDRTQVEVALAAADDDLTVAV   61 (73)
T ss_dssp             CCCHHHHHHHHT-TTCCHHHHHHHHHHHTSCHHHHH
T ss_pred             CcCHHHHHHHHH-hCCCHHHHHHHHHHhCCCHHHHH
Confidence            467788888765 59999999999999999986665

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.17  E-value=0.27  Score=31.62  Aligned_cols=34  Identities=26%  Similarity=0.492  Sum_probs=26.9

Q ss_pred             CCcccHHHHHhhhCCCHHHHHHHHHhcCC-cHHHHH
Q 028127          174 VEPRDIDLVMTQAGVSRSKAVKALKTHNG-DIVSAI  208 (213)
Q Consensus       174 i~eeDIeLVM~QagvSRekAikALke~nG-DIV~AI  208 (213)
                      .++..|..+++ -|.|++.|++||+.++| +|=.|+
T Consensus        11 ~~~~~l~~L~~-MGF~~~~a~~AL~~t~n~~ve~A~   45 (51)
T d2cpwa1          11 KHGSALDVLLS-MGFPRARAQKALASTGGRSVQTAC   45 (51)
T ss_dssp             SCCCHHHHHHH-HTCCHHHHHHHHHHTTTSCHHHHH
T ss_pred             CCHHHHHHHHH-cCCCHHHHHHHHHHHCCCCHHHHH
Confidence            45667887775 79999999999999877 775454

>d1eeja2 d.17.3.1 (A:1-60) Disulfide bond isomerase, DsbC, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: DsbC/DsbG N-terminal domain-like
family: DsbC/DsbG N-terminal domain-like
domain: Disulfide bond isomerase, DsbC, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=88.01  E-value=0.76  Score=30.09  Aligned_cols=43  Identities=21%  Similarity=0.473  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHcCCe-------ecCCeeEEEEEecCceEEEecCCeEEeeCCCceEEEecce
Q 028127           69 EKKSRKAMLKLGMK-------PVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEA  122 (213)
Q Consensus        69 eKK~rKamkKLGlk-------~v~gV~rVtIrk~d~~~fVI~~PeV~k~~gs~TYvIfGea  122 (213)
                      +..+|+.|.++|++       +++|.-+|++  .++ +|       |.+. ...|+|.|..
T Consensus         2 ea~i~~~L~~~~~~v~sV~~spi~GlyeV~~--~~~-i~-------Yvs~-dG~y~i~G~l   51 (60)
T d1eeja2           2 DAAIQQTLAKMGIKSSDIQPAPVAGMKTVLT--NSG-VL-------YITD-DGKHIIQGPM   51 (60)
T ss_dssp             HHHHHHHHHHTTCCEEEEEECSSTTEEEEEE--TTE-EE-------EEET-TSCEEEESCE
T ss_pred             HHHHHHHHHhcCCceeEEecCCCCCeEEEEE--CCE-EE-------EEcC-CCCEEEEeEE
Confidence            56788999999997       6788888866  434 32       4443 4457888764

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.62  E-value=0.2  Score=33.42  Aligned_cols=33  Identities=18%  Similarity=0.272  Sum_probs=25.7

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcCCcHHHHHh
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHNGDIVSAIM  209 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~nGDIV~AIM  209 (213)
                      ++-|..+|+ .|.+|+.|++||+.++|++=.|+-
T Consensus        20 e~~v~~L~~-MGF~~~~a~~AL~~~~~n~e~A~~   52 (63)
T d1wgna_          20 RQCVETVVN-MGYSYECVLRAMKKKGENIEQILD   52 (63)
T ss_dssp             HHHHHHHHH-HHCCHHHHHHHHHHHCSCHHHHHH
T ss_pred             HHHHHHHHH-cCCCHHHHHHHHHHcCCCHHHHHH
Confidence            345666554 599999999999999999766653

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.67  E-value=0.45  Score=30.32  Aligned_cols=32  Identities=22%  Similarity=0.324  Sum_probs=23.9

Q ss_pred             cccHHHHHhhhCCCHHHHHHHHHhcC-CcHHHHH
Q 028127          176 PRDIDLVMTQAGVSRSKAVKALKTHN-GDIVSAI  208 (213)
Q Consensus       176 eeDIeLVM~QagvSRekAikALke~n-GDIV~AI  208 (213)
                      |+-|..++ .-|.||..|++||+.++ +++=.|+
T Consensus         3 p~~v~~L~-~MGF~~~~a~~Al~~t~n~~ve~A~   35 (51)
T d2crna1           3 PSLLEPLL-AMGFPVHTALKALAATGRKTAEEAL   35 (51)
T ss_dssp             CSSHHHHH-HTSCCHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHH-HcCCCHHHHHHHHHHHCCCCHHHHH
Confidence            44555555 46999999999999985 4875554

>d2cosa1 a.5.2.1 (A:8-48) Serine/threonine protein kinase LATS2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Serine/threonine protein kinase LATS2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.32  E-value=0.39  Score=29.52  Aligned_cols=28  Identities=29%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             HhhhCCCHHHHHHHHHhcCCcHHHHHhh
Q 028127          183 MTQAGVSRSKAVKALKTHNGDIVSAIME  210 (213)
Q Consensus       183 M~QagvSRekAikALke~nGDIV~AIM~  210 (213)
                      +.++||..+-+++||+.+|+--++|-++
T Consensus         9 l~~aG~D~~m~iral~qt~~rsieaaie   36 (41)
T d2cosa1           9 LVNAGCDQEMAGRALKQTGSRSIEAALE   36 (41)
T ss_dssp             HHHHHCCHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHcCCCHHHHHHHHHHhCcccHHHHHH
Confidence            5689999999999999998877766554