Citrus Sinensis ID: 030838

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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
Protein Sequence
MHAFNLSSINVSTEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVACVGGGGGGSGGGGERLSSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRRDPI
Secondary Structure (PSIPRED)
ccccccccccEEccccccccccEEcccccccccHHHHHHcccccccccccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccEEccccc
Secondary Structure Prediction (SSPRO)
cccccHcccEEEEccccccccEccccccccccccccHHEccccccccEEccEEEEEEccccccccccccccccccHHccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEcccccEEEEcccc
Coil and Loop (DISEMBL)
mhafnlssinvstefnatRRRRCLSYnnsldleygrrrrvgrgckdlTRTYGIVacvggggggsggggerlsSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLkeiapnsllkclsdattlvrrdpi
Flexible Loop (DISEMBL)
mhafnlssinvstefnatrrrrclsynnsldleygrrrrvgrgckdltrTYGIVACVGGGGGGSGGGGERLSSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARirdslrsfeeeepifrlRRLMKEAVAEERFEDAARYRDKlkeiapnsllkclsdattlvrrdpi
Low Complexity Region (SEG)
MHAFNLSSINVSTEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVACVggggggsggggErlsssarsflsrsQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRRDPI
Disordered region (IsUnstruct)
************TEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVAC***************************************************************IFRLRRLM**************YR*KLKEIAPNSLLKCLS***********
Disordered Region (DISOPRED)
**************FNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVAC***********************SRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRRDP*
Disordered Region (DISEMBL)
MHAFNLSSINVSTEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVACVGGG*****************FLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRRDPI
Disordered Region (DISPRO)
****NLSSINVSTEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVACVG*********************SRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRR***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MHAFNLSSINVSTEFNATRRRRCLSYNNSLDLEYGRRRRVGRGCKDLTRTYGIVACVGGGGGGSGGGGERLSSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTLVRRDPI
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

No hits with e-value below 0.001 by BLAST

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	170
297733766	375	unnamed protein product [Vitis vinifera]	0.811	0.368	0.597	5e-40
225457005	277	PREDICTED: uncharacterized protein LOC10	0.782	0.480	0.610	2e-39
224133570	285	predicted protein [Populus trichocarpa]	0.770	0.459	0.637	1e-35
147841526	223	hypothetical protein VITISV_003764 [Viti	0.535	0.408	0.824	2e-35
224119374	283	predicted protein [Populus trichocarpa]	0.547	0.328	0.774	5e-34
388490690	266	unknown [Medicago truncatula]	0.547	0.349	0.774	6e-34
449469699	261	PREDICTED: F-box protein SKIP16-like [Cu	0.729	0.475	0.604	2e-33
356513515	265	PREDICTED: uncharacterized protein LOC10	0.494	0.316	0.773	3e-31
356562724	264	PREDICTED: uncharacterized protein LOC10	0.494	0.318	0.785	4e-31
255636969	184	unknown [Glycine max]	0.494	0.456	0.785	5e-31

>gi|297733766|emb|CBI15013.3| unnamed protein product [Vitis vinifera]

 Score =  169 bits (427), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 95/159 (59%), Positives = 108/159 (67%), Gaps = 21/159 (13%)

Query: 19  RRRRCLSYNNSLDLEYGRRR-------------RVGRGCKDLTRTYGIVACVGGGGGGSG 65
           R    LS+    DL  GR R             + G  C+D  R   I AC       SG
Sbjct: 97  REMHALSFKGFPDLNVGRERSWPGRLYHCTGTRKDGWNCRDFRRNCRIFAC------SSG 150

Query: 66  GGGERLSSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRR 125
             GE  S S  SFLSRSQ YALLKQQ++VAAK+EDYKEAAR+RDSLR FEEEEP+ RLRR
Sbjct: 151 ANGENQSPS--SFLSRSQTYALLKQQLQVAAKSEDYKEAARLRDSLRLFEEEEPVLRLRR 208

Query: 126 LMKEAVAEERFEDAARYRDKLKEIAPNSLLKCLSDATTL 164
           L+KEAVA+ERFEDAARYRD+LKEIAP+SLLKC SDATT+
Sbjct: 209 LIKEAVADERFEDAARYRDELKEIAPHSLLKCSSDATTV 247

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225457005|ref|XP_002282383.1| PREDICTED: uncharacterized protein LOC100267315 [Vitis vinifera]

 Score =  166 bits (421), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 94/154 (61%), Positives = 107/154 (69%), Gaps = 21/154 (13%)

Query: 24  LSYNNSLDLEYGRRR-------------RVGRGCKDLTRTYGIVACVGGGGGGSGGGGER 70
           LS+    DL  GR R             + G  C+D  R   I AC       SG  GE 
Sbjct: 4   LSFKGFPDLNVGRERSWPGRLYHCTGTRKDGWNCRDFRRNCRIFAC------SSGANGEN 57

Query: 71  LSSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEA 130
            S S  SFLSRSQ YALLKQQ++VAAK+EDYKEAAR+RDSLR FEEEEP+ RLRRL+KEA
Sbjct: 58  QSPS--SFLSRSQTYALLKQQLQVAAKSEDYKEAARLRDSLRLFEEEEPVLRLRRLIKEA 115

Query: 131 VAEERFEDAARYRDKLKEIAPNSLLKCLSDATTL 164
           VA+ERFEDAARYRD+LKEIAP+SLLKC SDATT+
Sbjct: 116 VADERFEDAARYRDELKEIAPHSLLKCSSDATTV 149

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133570|ref|XP_002321607.1| predicted protein [Populus trichocarpa] gi|222868603|gb|EEF05734.1| predicted protein [Populus trichocarpa]

 Score =  154 bits (388), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 86/135 (63%), Positives = 99/135 (73%), Gaps = 4/135 (2%)

Query: 34  YGRRRRVGRGCKDLTRTYGIVACV----GGGGGGSGGGGERLSSSARSFLSRSQAYALLK 89
           +G   R     ++ +R   IVAC     GGG G S         S  SFLSRSQ YA+LK
Sbjct: 25  FGTEWRQCLNLRNYSRNCRIVACSVERDGGGEGASSSSSSSSDPSPSSFLSRSQTYAMLK 84

Query: 90  QQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
           QQMEVAA++EDY+EAAR+RDSLRSFEE EP+ RLRRL+KEAVA+ERFEDA RYRD+LKEI
Sbjct: 85  QQMEVAAQSEDYEEAARLRDSLRSFEEVEPVLRLRRLLKEAVADERFEDATRYRDELKEI 144

Query: 150 APNSLLKCLSDATTL 164
           AP SLLKC SDATTL
Sbjct: 145 APLSLLKCSSDATTL 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147841526|emb|CAN75322.1| hypothetical protein VITISV_003764 [Vitis vinifera]

 Score =  154 bits (388), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 75/91 (82%), Positives = 85/91 (93%)

Query: 74  SARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAE 133
           S  SFLSRSQ YALLKQQ++VAAK+EDYKEAAR+RDSLR FEEEEP+ RLRRL+KEAVA+
Sbjct: 5   SPSSFLSRSQTYALLKQQLQVAAKSEDYKEAARLRDSLRLFEEEEPVLRLRRLIKEAVAD 64

Query: 134 ERFEDAARYRDKLKEIAPNSLLKCLSDATTL 164
           ERFEDAARYRD+LKEIAP+SLLKC SDATT+
Sbjct: 65  ERFEDAARYRDELKEIAPHSLLKCSSDATTV 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119374|ref|XP_002318056.1| predicted protein [Populus trichocarpa] gi|222858729|gb|EEE96276.1| predicted protein [Populus trichocarpa]

 Score =  149 bits (375), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 72/93 (77%), Positives = 85/93 (91%)

Query: 78  FLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFE 137
           FLSRSQ YA+LKQQMEVAA++EDY+EAARIRDSL+SFEEEEP+ RL RL+KEAVA+E+FE
Sbjct: 71  FLSRSQTYAMLKQQMEVAAQSEDYEEAARIRDSLKSFEEEEPVLRLHRLLKEAVADEQFE 130

Query: 138 DAARYRDKLKEIAPNSLLKCLSDATTLVRRDPI 170
           DAARYRD+LKEI P+SLLKC SDATTL  R+ +
Sbjct: 131 DAARYRDELKEIVPHSLLKCSSDATTLGIRNQV 163

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388490690|gb|AFK33411.1| unknown [Medicago truncatula]

 Score =  148 bits (374), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 72/93 (77%), Positives = 83/93 (89%)

Query: 72  SSSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAV 131
           + S+ SFLSR+Q YALLKQQMEVAAK+EDYKEAARIRDSL+ FEEEEP+ RLRRL+KEA 
Sbjct: 47  APSSTSFLSRTQTYALLKQQMEVAAKSEDYKEAARIRDSLKLFEEEEPVLRLRRLIKEAT 106

Query: 132 AEERFEDAARYRDKLKEIAPNSLLKCLSDATTL 164
           A+ERF+DAA YRD+LK IAP+S LKC SDATTL
Sbjct: 107 ADERFQDAASYRDELKRIAPHSFLKCSSDATTL 139

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449469699|ref|XP_004152556.1| PREDICTED: F-box protein SKIP16-like [Cucumis sativus] gi|449487861|ref|XP_004157837.1| PREDICTED: F-box protein SKIP16-like [Cucumis sativus]

 Score =  147 bits (370), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/134 (60%), Positives = 96/134 (71%), Gaps = 10/134 (7%)

Query: 34  YGRRRRVGRGCKDLTRTYGIVACVGGGGGGSGGGGERLSSSARSFLSRS---QAYALLKQ 90
           +G RR  GR C+       IVAC      G GG G+  S+S     S     + YALLKQ
Sbjct: 9   FGGRRAFGRSCR-------IVACASERNIGDGGEGQSQSASTSRSRSFLSRSETYALLKQ 61

Query: 91  QMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA 150
           Q+EVAAK+EDY+EAARIRDSL+ FEEEEP+ RLRRLMKEA++ ERFEDAA+YRD+L EIA
Sbjct: 62  QLEVAAKSEDYEEAARIRDSLKLFEEEEPVLRLRRLMKEAISSERFEDAAKYRDELNEIA 121

Query: 151 PNSLLKCLSDATTL 164
           P+ LLKC SDATTL
Sbjct: 122 PHCLLKCASDATTL 135

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513515|ref|XP_003525459.1| PREDICTED: uncharacterized protein LOC100784413 [Glycine max]

 Score =  139 bits (351), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 65/84 (77%), Positives = 77/84 (91%)

Query: 81  RSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAA 140
           R+Q YALLKQQ++VAAK+EDYKEAARIRDSL+ FE+EEP+ RLRRL+KEA+AEERF+DAA
Sbjct: 55  RTQTYALLKQQLQVAAKSEDYKEAARIRDSLKQFEDEEPVLRLRRLLKEAIAEERFQDAA 114

Query: 141 RYRDKLKEIAPNSLLKCLSDATTL 164
            YRD+L  IAP+SLLKC SDATTL
Sbjct: 115 SYRDELNNIAPHSLLKCCSDATTL 138

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562724|ref|XP_003549619.1| PREDICTED: uncharacterized protein LOC100782176 [Glycine max]

 Score =  139 bits (350), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 66/84 (78%), Positives = 78/84 (92%)

Query: 81  RSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAA 140
           R+Q YALLKQQ++VAAK+EDYKEAARIRDSL+ FE+EEP+ RLRRL+KEAVAEERF+DAA
Sbjct: 54  RTQTYALLKQQLQVAAKSEDYKEAARIRDSLKLFEDEEPVLRLRRLLKEAVAEERFQDAA 113

Query: 141 RYRDKLKEIAPNSLLKCLSDATTL 164
            YRD+L +IAP+SLLKC SDATTL
Sbjct: 114 SYRDELNKIAPHSLLKCCSDATTL 137

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255636969|gb|ACU18817.1| unknown [Glycine max]

 Score =  139 bits (349), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 66/84 (78%), Positives = 78/84 (92%)

Query: 81  RSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAA 140
           R+Q YALLKQQ++VAAK+EDYKEAARIRDSL+ FE+EEP+ RLRRL+KEAVAEERF+DAA
Sbjct: 54  RTQTYALLKQQLQVAAKSEDYKEAARIRDSLKLFEDEEPVLRLRRLLKEAVAEERFQDAA 113

Query: 141 RYRDKLKEIAPNSLLKCLSDATTL 164
            YRD+L +IAP+SLLKC SDATTL
Sbjct: 114 SYRDELNKIAPHSLLKCCSDATTL 137

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	170
TAIR|locus:2196889	651	EX2 "EXECUTER 2" [Arabidopsis	0.329	0.086	0.339	0.00054

TAIR|locus:2196889 EX2 "EXECUTER 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 104 (41.7 bits), Expect = 0.00054, P = 0.00054
 Identities = 19/56 (33%), Positives = 37/56 (66%)

Query:    86 ALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAAR 141
             +LLK Q+E A + ED++EA +++ ++     ++ +  + R ++ AV EER+ DA+R
Sbjct:   107 SLLKSQLEDAVEKEDFEEAVKLKQAISEATVDDAVAEIMRQLQTAVNEERYHDASR 162


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.133   0.373    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      170       146   0.00079  103 3  11 22  0.41    31
                                                     30  0.49    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  530 (56 KB)
  Total size of DFA:  114 KB (2076 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  14.49u 0.18s 14.67t   Elapsed:  00:00:01
  Total cpu time:  14.49u 0.18s 14.67t   Elapsed:  00:00:01
  Start:  Mon May 20 19:20:33 2013   End:  Mon May 20 19:20:34 2013

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0000304 "response to singlet oxygen" evidence=IGI

GO:0042651 "thylakoid membrane" evidence=IDA

GO:0010343 "singlet oxygen-mediated programmed cell death" evidence=IGI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	170
TIGR00631	655	TIGR00631, uvrb, excinuclease ABC, B subunit	2e-06
pfam02151	36	pfam02151, UVR, UvrB/uvrC motif	2e-06
PRK05298	652	PRK05298, PRK05298, excinuclease ABC subunit B; Pr	4e-06
COG0556	663	COG0556, UvrB, Helicase subunit of the DNA excisio	3e-05
PRK00558	598	PRK00558, uvrC, excinuclease ABC subunit C; Valida	4e-05
PRK00558	598	PRK00558, uvrC, excinuclease ABC subunit C; Valida	7e-05
PRK07883	557	PRK07883, PRK07883, hypothetical protein; Validate	2e-04
COG0322	581	COG0322, UvrC, Nuclease subunit of the excinucleas	4e-04
pfam02151	36	pfam02151, UVR, UvrB/uvrC motif	7e-04
COG0556	663	COG0556, UvrB, Helicase subunit of the DNA excisio	0.001
PRK05298	652	PRK05298, PRK05298, excinuclease ABC subunit B; Pr	0.002

>gnl|CDD|233063 TIGR00631, uvrb, excinuclease ABC, B subunit

 Score = 46.1 bits (110), Expect = 2e-06
 Identities = 17/64 (26%), Positives = 31/64 (48%)

Query: 86  ALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDK 145
            +L  +++        K+       L   E ++ I +L + MK+A     FE+AAR RD+
Sbjct: 591 DILDIELKEKEDAAKKKKKGEDLSDLSKKELKKLIKQLEKEMKQAARNLEFEEAARLRDE 650

Query: 146 LKEI 149
           + E+
Sbjct: 651 ILEL 654

All proteins in this family for wich functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 655

>gnl|CDD|145355 pfam02151, UVR, UvrB/uvrC motif

 Score = 42.0 bits (100), Expect = 2e-06
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
           ++ I  L   M+EA  EE FE AA+ RD++K +
Sbjct: 1   KKLIKELEEEMEEAAEEEDFEKAAKLRDQIKAL 33

Length = 36

>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional

 Score = 45.4 bits (109), Expect = 4e-06
 Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 9/53 (16%)

Query: 106 RIRDSLRSFEEEEP---------IFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
           +IRD L S  +++          I  L + MKEA     FE+AAR RD++KE+
Sbjct: 592 KIRDILDSVYKKDKLSKKELEKLIKELEKQMKEAAKNLEFEEAARLRDEIKEL 644

Length = 652

>gnl|CDD|223630 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 1/52 (1%)

Query: 99  EDYKEAARIRDSLRSFEE-EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
           ++YK     + S  S +E E+ I +L + MKEA     FE+AAR RD++KE+
Sbjct: 604 DEYKAKIEKKASKMSKKELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKEL 655

Length = 663

>gnl|CDD|234792 PRK00558, uvrC, excinuclease ABC subunit C; Validated

 Score = 42.4 bits (101), Expect = 4e-05
 Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 15/77 (19%)

Query: 75  ARSFLS-RSQAY-ALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLM-KEAV 131
           A+ FLS ++      L+++ME A++  +++ AAR RD +++         LRR+  K+ V
Sbjct: 192 AKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQA---------LRRVQEKQKV 242

Query: 132 AEERFEDA---ARYRDK 145
           + +  EDA   A   D 
Sbjct: 243 SLKDGEDADVIAIAVDG 259

Length = 598

>gnl|CDD|234792 PRK00558, uvrC, excinuclease ABC subunit C; Validated

 Score = 41.6 bits (99), Expect = 7e-05
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 99  EDYKEAAR-IRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLK 147
           E+Y E     +  L   + +E +  L   M+EA     FE AARYRD+++
Sbjct: 183 EEYAELVDEAKLFLSG-KTDEVLKELEEKMEEASENLEFERAARYRDQIQ 231

Length = 598

>gnl|CDD|236123 PRK07883, PRK07883, hypothetical protein; Validated

 Score = 40.7 bits (96), Expect = 2e-04
 Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 2/49 (4%)

Query: 99  EDY-KEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKL 146
            +Y +  AR R +L   +++  +  LR  +    A ERFE+AAR RD+L
Sbjct: 387 AEYAEAVARARAALTG-DDDAVLAALRARIDRLAAAERFEEAARLRDRL 434

Length = 557

>gnl|CDD|223399 COG0322, UvrC, Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]

 Score = 39.2 bits (92), Expect = 4e-04
 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 6/60 (10%)

Query: 93  EVAAKTEDYKEAARIRDSLRSF---EEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
                 E+Y+E     + ++ F   +++  +  L   M+EA     FE AAR RD++K +
Sbjct: 177 VGLISEEEYREIV---EEVKGFLKGKDDAVLQELEEKMEEASENLDFERAARLRDQIKAL 233

Length = 581

>gnl|CDD|145355 pfam02151, UVR, UvrB/uvrC motif

 Score = 35.5 bits (83), Expect = 7e-04
 Identities = 12/30 (40%), Positives = 26/30 (86%)

Query: 88  LKQQMEVAAKTEDYKEAARIRDSLRSFEEE 117
           L+++ME AA+ ED+++AA++RD +++ E++
Sbjct: 7   LEEEMEEAAEEEDFEKAAKLRDQIKALEKQ 36

Length = 36

>gnl|CDD|223630 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

 Score = 38.0 bits (89), Expect = 0.001
 Identities = 13/30 (43%), Positives = 24/30 (80%)

Query: 88  LKQQMEVAAKTEDYKEAARIRDSLRSFEEE 117
           L+++M+ AAK  +++EAAR+RD ++  +EE
Sbjct: 629 LEKEMKEAAKNLEFEEAARLRDEIKELKEE 658

Length = 663

>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional

 Score = 37.3 bits (88), Expect = 0.002
 Identities = 14/31 (45%), Positives = 24/31 (77%)

Query: 88  LKQQMEVAAKTEDYKEAARIRDSLRSFEEEE 118
           L++QM+ AAK  +++EAAR+RD ++  +EE 
Sbjct: 618 LEKQMKEAAKNLEFEEAARLRDEIKELKEEL 648

Length = 652

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	170
COG3880	176	Modulator of heat shock repressor CtsR, McsA [Sign	99.4
PF02151	36	UVR: UvrB/uvrC motif; InterPro: IPR001943 During t	98.67
PRK07883	557	hypothetical protein; Validated	98.38
PRK12306	519	uvrC excinuclease ABC subunit C; Reviewed	98.31
PRK00558	598	uvrC excinuclease ABC subunit C; Validated	98.29
PRK14666	694	uvrC excinuclease ABC subunit C; Provisional	98.26
PRK14670	574	uvrC excinuclease ABC subunit C; Provisional	98.26
PRK14669	624	uvrC excinuclease ABC subunit C; Provisional	98.26
PRK14671	621	uvrC excinuclease ABC subunit C; Provisional	98.24
PRK14667	567	uvrC excinuclease ABC subunit C; Provisional	98.23
TIGR00194	574	uvrC excinuclease ABC, C subunit. This family cons	98.22
COG0322	581	UvrC Nuclease subunit of the excinuclease complex	98.21
PRK14672	691	uvrC excinuclease ABC subunit C; Provisional	98.19
PRK14668	577	uvrC excinuclease ABC subunit C; Provisional	98.18
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	97.37
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	97.26
PRK05298	652	excinuclease ABC subunit B; Provisional	97.1
COG3880	176	Modulator of heat shock repressor CtsR, McsA [Sign	94.61
PF02151	36	UVR: UvrB/uvrC motif; InterPro: IPR001943 During t	94.57
KOG4825	666	consensus Component of synaptic membrane glycine-,	93.93

>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]

Probab=99.40  E-value=1.8e-13  Score=111.74  Aligned_cols=79  Identities=15%  Similarity=0.378  Sum_probs=67.1

Q ss_pred             CcccccchHHHHHHHHHHHHHhhhhhh---HHHHHHHHhhh-cccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhcc
Q 030838           74 SARSFLSRSQAYALLKQQMEVAAKTED---YKEAARIRDSL-RSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI  149 (170)
Q Consensus        74 ~~~~~l~~~~cYe~fk~qLe~AVerED---YEeAaklRd~i-lelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~L  149 (170)
                      .-.++|||+.||..|+.+|.+.+++++   .+|+++....+ ..+.....|..|++.|+++|+.|+||+||.+||||+.|
T Consensus        88 ~~~g~fGCaeCY~tf~~~i~pi~~rvq~g~~~H~GK~P~~~~~~i~~~~~I~~L~e~Lq~~i~~EefEeAA~iRDqIr~L  167 (176)
T COG3880          88 IQSGLFGCAECYKTFESQISPIITRVQGGYVEHVGKVPKRIGRKINPKRKIIALKEALQDLIEREEFEEAAVIRDQIRAL  167 (176)
T ss_pred             HHhcccchHHHHHHHHHHhhHHHHHhhCCceeecCcCcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567899999999999999999999998   56777764432 33344678999999999999999999999999999999


Q ss_pred             CCC
Q 030838          150 APN  152 (170)
Q Consensus       150 e~~  152 (170)
                      +..
T Consensus       168 k~k  170 (176)
T COG3880         168 KAK  170 (176)
T ss_pred             Hhh
Confidence            754

>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []

Probab=98.67  E-value=1.9e-08  Score=62.66  Aligned_cols=33  Identities=45%  Similarity=0.624  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838          118 EPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus       118 d~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      ..+..|..+|..|+++++||+||.|||+|..|+
T Consensus         2 ~~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~   34 (36)
T PF02151_consen    2 KLIKELEEKMEEAVENEDFEKAARLRDQIKALK   34 (36)
T ss_dssp             HHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHH
Confidence            468899999999999999999999999999875

UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.

>PRK07883 hypothetical protein; Validated

Probab=98.38  E-value=4e-07  Score=85.36  Aligned_cols=56  Identities=29%  Similarity=0.427  Sum_probs=52.9

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.++....+++++....+..|+++|++|+++++||+||++||+|..|+
T Consensus       383 ~~~~~~Y~~~v~~~~~fL~G~~~~~~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~  438 (557)
T PRK07883        383 RESAAEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARLRDRLAALL  438 (557)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            57889999999999999999998999999999999999999999999999999874

>PRK12306 uvrC excinuclease ABC subunit C; Reviewed

Probab=98.31  E-value=8e-07  Score=83.19  Aligned_cols=56  Identities=23%  Similarity=0.345  Sum_probs=53.0

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+.+|++|+++++||+||.+||+|.+|+
T Consensus       169 ~~s~e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~  224 (519)
T PRK12306        169 NISSDEYLEQVKKAEEVLKGKIDELIEKLEEEMAEKAKNQQFERALVIRDEINAIE  224 (519)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            57789999999999999999998999999999999999999999999999999884

>PRK00558 uvrC excinuclease ABC subunit C; Validated

Probab=98.29  E-value=8.3e-07  Score=84.07  Aligned_cols=56  Identities=30%  Similarity=0.407  Sum_probs=53.0

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+++|++|+++++||+||.+||+|.+|+
T Consensus       179 ~~~~e~Y~~~v~~~~~fL~G~~~~~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~  234 (598)
T PRK00558        179 LISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALR  234 (598)
T ss_pred             CCCHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHH
Confidence            46889999999999999999998999999999999999999999999999999984

>PRK14666 uvrC excinuclease ABC subunit C; Provisional

Probab=98.26  E-value=9.5e-07  Score=85.20  Aligned_cols=56  Identities=29%  Similarity=0.308  Sum_probs=53.1

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+.+|++|+++++||+||+|||+|..|+
T Consensus       178 ~is~e~Y~~~V~~v~~fL~G~~~~l~~~L~~~M~~AAe~l~FE~AA~lRD~i~aL~  233 (694)
T PRK14666        178 DVPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQIRAVE  233 (694)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            47889999999999999999998999999999999999999999999999999873

>PRK14670 uvrC excinuclease ABC subunit C; Provisional

Probab=98.26  E-value=1.1e-06  Score=83.14  Aligned_cols=56  Identities=16%  Similarity=0.270  Sum_probs=52.8

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .+++|+|.+.+.....+++++....+..|+.+|+.|+++++||+||.+||+|.+|+
T Consensus       154 ~~~~e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~  209 (574)
T PRK14670        154 EDLEKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLI  209 (574)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            46889999999999999999999999999999999999999999999999999873

>PRK14669 uvrC excinuclease ABC subunit C; Provisional

Probab=98.26  E-value=1.2e-06  Score=83.74  Aligned_cols=57  Identities=30%  Similarity=0.308  Sum_probs=53.4

Q ss_pred             HhhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           94 VAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        94 ~AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      ..++.|+|.+.+.....+++++....+..|+++|+.|+++++||+||++||+|..|+
T Consensus       179 ~~i~~e~Y~~~v~~v~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~  235 (624)
T PRK14669        179 GLTTDEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVE  235 (624)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            456789999999999999999998999999999999999999999999999999873

>PRK14671 uvrC excinuclease ABC subunit C; Provisional

Probab=98.24  E-value=1.3e-06  Score=83.32  Aligned_cols=56  Identities=29%  Similarity=0.318  Sum_probs=53.0

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+.+|++|+++++||+||++||+|.+|+
T Consensus       192 ~~s~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~  247 (621)
T PRK14671        192 LQSEEDYLEMIEEIVRLLKGKTSALIRSLTEEMQRAAAELKFEEAAELKDQIESLK  247 (621)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            47889999999999999999999999999999999999999999999999999984

>PRK14667 uvrC excinuclease ABC subunit C; Provisional

Probab=98.23  E-value=1.4e-06  Score=82.33  Aligned_cols=56  Identities=23%  Similarity=0.256  Sum_probs=52.7

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.++|.+.+.....+++++....+..|+++|++|+++++||+||++||+|.+|+
T Consensus       176 ~~s~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~  231 (567)
T PRK14667        176 KISKEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALE  231 (567)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            46889999999999999999988999999999999999999999999999999874

>TIGR00194 uvrC excinuclease ABC, C subunit

Probab=98.22  E-value=1.6e-06  Score=82.07  Aligned_cols=56  Identities=25%  Similarity=0.356  Sum_probs=53.0

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+.+|++|+++++||+||++||+|.+|+
T Consensus       171 ~~s~e~Y~~~v~~~~~fL~g~~~~~~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~  226 (574)
T TIGR00194       171 EITEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVR  226 (574)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            57889999999999999999998999999999999999999999999999999984

This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.

>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]

Probab=98.21  E-value=1.3e-06  Score=82.75  Aligned_cols=57  Identities=26%  Similarity=0.377  Sum_probs=53.5

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAP  151 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~  151 (170)
                      .|+.|+|.+++.-...+++++....+..|+++|++|+++++||.||+|||+|.+|+.
T Consensus       179 ~is~e~Y~e~v~~~~~fL~G~~~~v~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~  235 (581)
T COG0322         179 LISEEEYREIVEEVKGFLKGKDDAVLQELEEKMEEASENLDFERAARLRDQIKALEK  235 (581)
T ss_pred             cCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHH
Confidence            688999999999999999999888999999999999999999999999999999843

>PRK14672 uvrC excinuclease ABC subunit C; Provisional

Probab=98.19  E-value=2e-06  Score=83.00  Aligned_cols=56  Identities=30%  Similarity=0.374  Sum_probs=53.0

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....+++++....+..|+.+|+.|+++++||+||+|||+|..|+
T Consensus       182 ~is~e~Y~~~V~~v~~fL~G~~~~ll~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~  237 (691)
T PRK14672        182 WVSPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDDIQAIR  237 (691)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence            57889999999999999999999999999999999999999999999999999985

>PRK14668 uvrC excinuclease ABC subunit C; Provisional

Probab=98.18  E-value=2e-06  Score=81.40  Aligned_cols=56  Identities=29%  Similarity=0.338  Sum_probs=52.8

Q ss_pred             hhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838           95 AAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus        95 AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .++.|+|.+.+.....++.++....+..|+.+|++|+++++||+||++||+|.+|+
T Consensus       176 ~~s~e~Y~~~v~~~~~fL~G~~~~~~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~  231 (577)
T PRK14668        176 EIDEEAYAEDVESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDRLEAVE  231 (577)
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            47889999999999999999988899999999999999999999999999999884

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

Probab=97.37  E-value=0.00015  Score=69.05  Aligned_cols=36  Identities=44%  Similarity=0.627  Sum_probs=32.8

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCCC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPN  152 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~~  152 (170)
                      +..+..|+++|++|+++.+||+||+|||+|.+|+..
T Consensus       623 ~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~  658 (663)
T COG0556         623 EKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEE  658 (663)
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            457889999999999999999999999999998754

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=97.26  E-value=0.00025  Score=68.10  Aligned_cols=34  Identities=38%  Similarity=0.553  Sum_probs=31.0

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      +..+..|+++|++|+++++||+||.+||+|..|+
T Consensus       622 ~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L~  655 (655)
T TIGR00631       622 KKLIKQLEKEMKQAARNLEFEEAARLRDEILELK  655 (655)
T ss_pred             HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            3577899999999999999999999999998874

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=97.10  E-value=0.00038  Score=66.48  Aligned_cols=35  Identities=46%  Similarity=0.626  Sum_probs=32.2

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAP  151 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~  151 (170)
                      +..+..|+++|++|+++++||+||+|||+|.+|+.
T Consensus       612 ~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~i~~l~~  646 (652)
T PRK05298        612 EKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKE  646 (652)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            35888999999999999999999999999999864

>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]

Probab=94.61  E-value=0.038  Score=45.79  Aligned_cols=43  Identities=23%  Similarity=0.396  Sum_probs=37.1

Q ss_pred             cccccchHHHHHHHHHHHHHhhhhhhHHHHHHHHhhhcccCcc
Q 030838           75 ARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEE  117 (170)
Q Consensus        75 ~~~~l~~~~cYe~fk~qLe~AVerEDYEeAaklRd~ilelKsE  117 (170)
                      ..+.......+..|+..|+++|++|||++|+.+||.|+.++.+
T Consensus       128 ~~~~i~~~~~I~~L~e~Lq~~i~~EefEeAA~iRDqIr~Lk~k  170 (176)
T COG3880         128 IGRKINPKRKIIALKEALQDLIEREEFEEAAVIRDQIRALKAK  170 (176)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3445666788999999999999999999999999999988743

>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []

Probab=94.57  E-value=0.018  Score=35.64  Aligned_cols=31  Identities=35%  Similarity=0.669  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhhhcccC
Q 030838           85 YALLKQQMEVAAKTEDYKEAARIRDSLRSFE  115 (170)
Q Consensus        85 Ye~fk~qLe~AVerEDYEeAaklRd~ilelK  115 (170)
                      +..++..|..+++.++|+.|+.+++.+..++
T Consensus         4 i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~   34 (36)
T PF02151_consen    4 IKELEEKMEEAVENEDFEKAARLRDQIKALK   34 (36)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCHHHHHHHHHHHHHHH
Confidence            6789999999999999999999999987654

UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.

>KOG4825 consensus Component of synaptic membrane glycine-, glutamate- and thienylcyclohexylpiperidine-binding glycoprotein (43kDa) [Signal transduction mechanisms]

Probab=93.93  E-value=0.042  Score=52.08  Aligned_cols=65  Identities=20%  Similarity=0.302  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhhhcccCc-chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhcc
Q 030838           85 YALLKQQMEVAAKTEDYKEAARIRDSLRSFEE-EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI  149 (170)
Q Consensus        85 Ye~fk~qLe~AVerEDYEeAaklRd~ilelKs-Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~L  149 (170)
                      +-.+...-+.||.+|+|..|.+.+-.+..+++ ...+++|+..-..||++|||..|-...|+|.++
T Consensus       173 IgaidenKqeAVakEdfdlAKkaklAiaDLkKsgeeleelEndKgcAVadEDfdlAkdkkdeieal  238 (666)
T KOG4825|consen  173 IGAIDENKQEAVAKEDFDLAKKAKLAIADLKKSGEELEELENDKGCAVADEDFDLAKDKKDEIEAL  238 (666)
T ss_pred             HHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhcccccccchhhhHHHHHHHHHHHH
Confidence            34455556779999999988887777766653 468999999999999999999999999999886

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	170
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	3e-06
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	5e-05
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	1e-04

>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B* Length = 661

 Score = 45.2 bits (108), Expect = 3e-06
 Identities = 17/63 (26%), Positives = 29/63 (46%)

Query: 87  LLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKL 146
           +++  +    K E   +AA     +   E ++ + ++   MKEA     FE AA  RD L
Sbjct: 595 VIRATVAAEDKAEYKTKAAPKLSKMTKKERQKVVEQMEHEMKEAAKALDFERAAELRDLL 654

Query: 147 KEI 149
            E+
Sbjct: 655 LEL 657

>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A* Length = 664

 Score = 40.6 bits (96), Expect = 1e-04
 Identities = 15/49 (30%), Positives = 22/49 (44%)

Query: 101 YKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
             E A +   L   +  E I  L   M +A     FE AAR RD+++ +
Sbjct: 594 GYEEAPLEADLSGEDLRERIAELELAMWQAAEALDFERAARLRDEIRAL 642

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	170
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	98.49
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	97.67
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	97.13
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	88.69
1gp8_A	40	Protein (scaffolding protein); coat protein-bindin	85.52

>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*

Probab=97.67  E-value=2e-05  Score=73.08  Aligned_cols=36  Identities=33%  Similarity=0.416  Sum_probs=28.1

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCCC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPN  152 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~~  152 (170)
                      ...+.+|+++|++|+++++||+||+|||+|++|+..
T Consensus       625 ~~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~~  660 (661)
T 2d7d_A          625 QKVVEQMEHEMKEAAKALDFERAAELRDLLLELKAE  660 (661)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHhc
Confidence            357889999999999999999999999999999764

>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*

Probab=97.13  E-value=6.7e-05  Score=69.64  Aligned_cols=36  Identities=33%  Similarity=0.440  Sum_probs=0.0

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCCC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAPN  152 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~~  152 (170)
                      ...+.+|+++|++|+++++||+||+|||+|+.|+..
T Consensus       610 ~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~  645 (664)
T 1c4o_A          610 RERIAELELAMWQAAEALDFERAARLRDEIRALEAR  645 (664)
T ss_dssp             ------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHH
Confidence            457889999999999999999999999999999866

>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A

Probab=85.52  E-value=1.2  Score=27.96  Aligned_cols=34  Identities=24%  Similarity=0.276  Sum_probs=30.0

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIA  150 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le  150 (170)
                      .+.++.++++|..|-.+.|||.+-.|.-+++.|+
T Consensus         7 ~d~I~aiEQqiyvA~seGd~etv~~Le~QL~~lR   40 (40)
T 1gp8_A            7 AANKDAIRKQMDAAASKGDVETYRKLKAKLKGIR   40 (40)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Confidence            4678899999999999999999999999987763

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	170
d1e52a_	56	a.2.9.1 (A:) C-terminal UvrC-binding domain of Uvr	3e-05
d1e52a_	56	a.2.9.1 (A:) C-terminal UvrC-binding domain of Uvr	9e-05

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]} Length = 56

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

 Score = 37.8 bits (88), Expect = 3e-05
 Identities = 12/47 (25%), Positives = 22/47 (46%)

Query: 103 EAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLKEI 149
           E   +   +     ++ I  L  LM +      FE+AA+ RD+L ++
Sbjct: 2   EPDNVPMDMSPKALQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQL 48

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]} Length = 56

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

 Score = 36.7 bits (85), Expect = 9e-05
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 88  LKQQMEVAAKTEDYKEAARIRDSLRSFEEE 117
           L+  M   A+  +++EAA+IRD L    E 
Sbjct: 22  LEGLMMQHAQNLEFEEAAQIRDQLHQLREL 51

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	170
d1e52a_	56	C-terminal UvrC-binding domain of UvrB {Escherichi	98.57
d1e52a_	56	C-terminal UvrC-binding domain of UvrB {Escherichi	89.26
d1fpoa2	95	HSC20 (HSCB), C-terminal oligomerisation domain {E	80.09

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

Probab=98.57  E-value=9.6e-09  Score=67.81  Aligned_cols=35  Identities=31%  Similarity=0.520  Sum_probs=32.0

Q ss_pred             chhHHHHHHHHHHHHHhhhhHHHHHHHHHhhccCC
Q 030838          117 EEPIFRLRRLMKEAVAEERFEDAARYRDKLKEIAP  151 (170)
Q Consensus       117 Ed~L~~L~~~L~~AIe~EdYE~AA~lRDeIk~Le~  151 (170)
                      ...+..|+.+|++|+++++||+||.|||+|..|+.
T Consensus        16 ~k~i~~Le~~M~~aa~~l~FE~AA~~RD~I~~l~~   50 (56)
T d1e52a_          16 QQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRE   50 (56)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Confidence            45788999999999999999999999999998853

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

Probab=89.26  E-value=0.086  Score=33.57  Aligned_cols=36  Identities=33%  Similarity=0.404  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHHHHhhhhhhHHHHHHHHhhhcccCc
Q 030838           81 RSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEE  116 (170)
Q Consensus        81 ~~~cYe~fk~qLe~AVerEDYEeAaklRd~ilelKs  116 (170)
                      ....+..|+.+|..+.++.+|+.|+.+||.+..++.
T Consensus        15 l~k~i~~Le~~M~~aa~~l~FE~AA~~RD~I~~l~~   50 (56)
T d1e52a_          15 LQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRE   50 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Confidence            357799999999999999999999999999887653

>d1fpoa2 a.23.1.1 (A:77-171) HSC20 (HSCB), C-terminal oligomerisation domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Open three-helical up-and-down bundle
superfamily: HSC20 (HSCB), C-terminal oligomerisation domain
family: HSC20 (HSCB), C-terminal oligomerisation domain
domain: HSC20 (HSCB), C-terminal oligomerisation domain
species: Escherichia coli [TaxId: 562]

Probab=80.09  E-value=4.6  Score=26.74  Aligned_cols=67  Identities=18%  Similarity=0.245  Sum_probs=46.0

Q ss_pred             CCcccccchHHHHHHHHHHHHHhhhhhhHHHHHHHHhhhcccCcchhHHHHHHHHHHHHHhhhhHHHHHHHHHhh
Q 030838           73 SSARSFLSRSQAYALLKQQMEVAAKTEDYKEAARIRDSLRSFEEEEPIFRLRRLMKEAVAEERFEDAARYRDKLK  147 (170)
Q Consensus        73 ~~~~~~l~~~~cYe~fk~qLe~AVerEDYEeAaklRd~ilelKsEd~L~~L~~~L~~AIe~EdYE~AA~lRDeIk  147 (170)
                      .....||.   ...+++..|+.+....+.+....+...+     +..+..+...+..+....+|+.|+..=-+++
T Consensus        10 ~~DpeFLM---eqME~RE~lee~~~~~d~~~l~~l~~ei-----~~~~~~~~~~l~~~~~~~d~~~A~~~~~kLk   76 (95)
T d1fpoa2          10 VRDTAFLM---EQLELREELDEIEQAKDEARLESFIKRV-----KKMFDTRHQLMVEQLDNETWDAAADTCRKLR   76 (95)
T ss_dssp             CSCHHHHH---HHHHHHHHHHHHHHHTCHHHHHHHHHHH-----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCHHHHH---HHHHHHHHHHHhhcCCCHHHHHHHHHHH-----HHHHHHHHHHHHHHHhhccHHHHHHHHHHhH
Confidence            44444443   5778899999887766644433343333     2477888889999999999999987654443