Citrus Sinensis ID: 034360

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------
Protein Sequence
MNPQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEKKKKRKKAAR
Secondary Structure (PSIPRED)
cccccccccccEEEEEEEccccEEEEccEEEEEEEEccccEEEEEcccccEEEEcccccccEEEEEEEEEEEEccccEEEcccHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEEEEEcccccccccEEEEEEEEccccEEEEEEcccEEEEEEcccccccEEEEEEEcccccccccEHHcccccHHHHHHHHHcc
Coil and Loop (DISEMBL)
mnpqvgssetDAVWVYTLTygggivsgdsiSCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEKKKKRKKAAR
Flexible Loop (DISEMBL)
mnpqvgssetDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKvykslgsksseqILEMAVPAIVEErgvasffdqqkekkkkrkkaar
Low Complexity Region (SEG)
MNPQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQkekkkkrkkaar
Disordered region (IsUnstruct)
**********DAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKS********ILEMAVPAIVEERGV*******************
Disordered Region (DISOPRED)
********ETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQK***********
Disordered Region (DISEMBL)
*********TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFF***************
Disordered Region (DISPRO)
*****GSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEKKKKRK****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNPQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEKKKKRKKAAR
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	97	2.2.26 [Sep-21-2011]
A7HHM9	297	Urease accessory protein	yes	no	0.505	0.164	0.408	3e-06
A9GP79	312	Urease accessory protein	no	no	0.597	0.185	0.45	4e-06
P87125	290	Uncharacterized urease ac	yes	no	0.639	0.213	0.349	2e-05
O30332	289	Urease accessory protein	yes	no	0.432	0.145	0.428	0.0002
P17089	274	Urease accessory protein	yes	no	0.690	0.244	0.369	0.0003
Q9FAS8	280	Urease accessory protein	yes	no	0.515	0.178	0.381	0.0004
A6WVQ8	283	Urease accessory protein	yes	no	0.567	0.194	0.327	0.0004
Q9Z364	271	Urease accessory protein	N/A	no	0.474	0.169	0.456	0.0005
Q5E725	287	Urease accessory protein	yes	no	0.556	0.188	0.388	0.0006
Q56562	287	Urease accessory protein	yes	no	0.484	0.163	0.404	0.0007

>sp|A7HHM9|URED_ANADF Urease accessory protein UreD OS=Anaeromyxobacter sp. (strain Fw109-5) GN=ureD PE=3 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/49 (40%), Positives = 35/49 (71%)

Query: 14  WVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSE 62
           W+ + ++GGG+++GD +S E+ V     A+L+TQA TK+Y+S G  +S+
Sbjct: 69  WIISASHGGGLLAGDEVSLEVDVGAGAVALLSTQAGTKIYRSRGEVASQ 117

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.
Anaeromyxobacter sp. (strain Fw109-5) (taxid: 404589)

>sp|A9GP79|URED_SORC5 Urease accessory protein UreD OS=Sorangium cellulosum (strain So ce56) GN=ureD PE=3 SV=2

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 27/60 (45%), Positives = 36/60 (60%), Gaps = 2/60 (3%)

Query: 12  AVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPA 71
           A WV+  ++GGG+V GD ++    V     A+L+TQASTKVY+S     S Q LE  V A
Sbjct: 85  AAWVFVASFGGGLVGGDELNLHARVGRGAAALLSTQASTKVYRS--PLVSRQRLEAEVQA 142

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Sorangium cellulosum (strain So ce56) (taxid: 448385)

>sp|P87125|URED_SCHPO Uncharacterized urease accessory protein ureD-like OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC3A12.09c PE=3 SV=1

 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 41/63 (65%), Gaps = 1/63 (1%)

Query: 8  SETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSL-GSKSSEQILE 66
          ++ D   +Y ++YGGG+VSGD ++ +I V    T  + +Q +TK+YK + G  +++Q L+
Sbjct: 35 TKLDFSILYIMSYGGGLVSGDRVALDIIVGKNATLCIQSQGNTKLYKQIPGKPATQQKLD 94

Query: 67 MAV 69
          + V
Sbjct: 95 VEV 97

Probably facilitates nickel incorporation.

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

>sp|O30332|URED_CUPNH Urease accessory protein UreD OS=Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) GN=ureD PE=3 SV=1

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 28/42 (66%)

Query: 23  GIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQI 64
           G+  GDS+  ++TV D   AVL T  +TK YKSLG ++++ +
Sbjct: 65  GVAGGDSLDIDVTVEDGAHAVLATPGATKWYKSLGREAAQHV 106

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) (taxid: 381666)

>sp|P17089|URED_PROMH Urease accessory protein UreD OS=Proteus mirabilis (strain HI4320) GN=ureD PE=1 SV=1

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 6/73 (8%)

Query: 3   PQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSE 62
           P+ G + T     Y L   GG+V GD++S  I V     A+LTT  +TK Y+S G  +S+
Sbjct: 43  PEQGVAHT-----YLLHPPGGVVGGDTLSININVQPYAHALLTTPGATKFYRSAGGTASQ 97

Query: 63  -QILEMAVPAIVE 74
            Q L +A    +E
Sbjct: 98  TQTLTVAQEGFLE 110

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Proteus mirabilis (strain HI4320) (taxid: 529507)

>sp|Q9FAS8|URED_VIBPH Urease accessory protein UreD OS=Vibrio parahaemolyticus GN=ureD PE=3 SV=1

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 5/55 (9%)

Query: 3  PQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLG 57
          P+ GSS T     Y L   GG+V+GD +S  + V +   +++TT  +TK Y+S+G
Sbjct: 45 PEHGSSHT-----YLLHPPGGVVAGDLLSINVVVEEGAHSLITTPGATKFYRSIG 94

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Vibrio parahaemolyticus (taxid: 670)

>sp|A6WVQ8|URED1_OCHA4 Urease accessory protein UreD 1 OS=Ochrobactrum anthropi (strain ATCC 49188 / DSM 6882 / NCTC 12168) GN=ureD1 PE=3 SV=1

 Score = 43.1 bits (100), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 35/58 (60%), Gaps = 3/58 (5%)

Query: 3   PQVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKS 60
           PQVG    +A+ + T    GG+  GD +  ++ + +  +AV+TTQA  ++Y+S G ++
Sbjct: 47  PQVGGDPLEAILINT---SGGLTGGDRLQWDVELGENASAVITTQACERIYRSGGGEA 101

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Ochrobactrum anthropi (strain ATCC 49188 / DSM 6882 / NCTC 12168) (taxid: 439375)

>sp|Q9Z364|URED_ACTNA Urease accessory protein UreD OS=Actinomyces naeslundii GN=ureD PE=3 SV=1

 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/46 (45%), Positives = 29/46 (63%)

Query: 10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKS 55
          T  V  Y +  GGG + GDS   E+ V    +AVLTTQA+TK+Y++
Sbjct: 40 TGQVAYYVVNPGGGYLDGDSYLTEVEVLQGASAVLTTQAATKIYRT 85

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Actinomyces naeslundii (taxid: 1655)

>sp|Q5E725|URED_VIBF1 Urease accessory protein UreD OS=Vibrio fischeri (strain ATCC 700601 / ES114) GN=ureD PE=3 SV=1

 Score = 43.1 bits (100), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 31/54 (57%)

Query: 9  ETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSE 62
          ET     Y L   GG+V GD ++  I V+    ++LTT  +TK Y+S G+ SS+
Sbjct: 46 ETGIAHTYLLHPPGGVVGGDQLNINIHVSPQAHSLLTTPGATKFYRSSGATSSQ 99

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Vibrio fischeri (strain ATCC 700601 / ES114) (taxid: 312309)

>sp|Q56562|URED_UREPA Urease accessory protein UreD OS=Ureaplasma parvum serovar 3 (strain ATCC 700970) GN=ureD PE=3 SV=2

 Score = 42.7 bits (99), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 30/47 (63%)

Query: 17  TLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
           T++ GGG VSG+    +  + D    ++TTQ+S K YK++  K+SEQ
Sbjct: 58  TISMGGGYVSGEIYRSDFEINDDARCIITTQSSAKAYKTVDGKTSEQ 104

Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.

Ureaplasma parvum serovar 3 (strain ATCC 700970) (taxid: 273119)

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	97
255585459	294	Urease accessory protein ureD, putative	0.649	0.214	0.825	1e-22
222143566	304	urease accessory protein ureD [Morus alb	0.680	0.217	0.757	5e-22
225423639	291	PREDICTED: urease accessory protein UreD	0.649	0.216	0.793	2e-21
296088257	95	unnamed protein product [Vitis vinifera]	0.649	0.663	0.793	5e-21
356575140	302	PREDICTED: urease accessory protein ureD	0.680	0.218	0.742	1e-20
351727327	293	urease accessory protein UreD [Glycine m	0.680	0.225	0.742	1e-20
255645893	308	unknown [Glycine max]	0.680	0.214	0.742	2e-20
356575142	310	PREDICTED: urease accessory protein ureD	0.680	0.212	0.742	2e-20
30686277	294	urease accessory protein D [Arabidopsis	0.587	0.193	0.771	1e-19
31096385	297	putative urease accessory protein D [Sol	0.680	0.222	0.671	3e-19

>gi|255585459|ref|XP_002533423.1| Urease accessory protein ureD, putative [Ricinus communis] gi|223526736|gb|EEF28966.1| Urease accessory protein ureD, putative [Ricinus communis]

 Score =  110 bits (274), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 52/63 (82%), Positives = 56/63 (88%)

Query: 4  QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
          +VG S+TDAVW+YTLTYGGGIVSGDSISCE  +   CTAVLTTQASTKVYKSLGSK SEQ
Sbjct: 33 KVGPSKTDAVWIYTLTYGGGIVSGDSISCEFIIGHGCTAVLTTQASTKVYKSLGSKCSEQ 92

Query: 64 ILE 66
          ILE
Sbjct: 93 ILE 95

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222143566|dbj|BAH19312.1| urease accessory protein ureD [Morus alba]

 Score =  108 bits (269), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 50/66 (75%), Positives = 59/66 (89%)

Query: 4   QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
           ++G+S+TDAVW+YTLTYGGGIVSGDSISC+ T++D CT VLTTQASTKVYKSLGSK S Q
Sbjct: 43  KLGNSKTDAVWIYTLTYGGGIVSGDSISCDFTISDGCTTVLTTQASTKVYKSLGSKCSVQ 102

Query: 64  ILEMAV 69
           +LE  V
Sbjct: 103 VLEARV 108

Source: Morus alba

Species: Morus alba

Genus: Morus

Family: Moraceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423639|ref|XP_002276068.1| PREDICTED: urease accessory protein UreD [Vitis vinifera] gi|297738000|emb|CBI27201.3| unnamed protein product [Vitis vinifera]

 Score =  106 bits (264), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/63 (79%), Positives = 56/63 (88%)

Query: 4  QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
          +VGSS TDAVW+Y+LTYGGGIVSGDSISC  T+ D CT VLTTQASTKVYKS+GSK SEQ
Sbjct: 33 KVGSSITDAVWIYSLTYGGGIVSGDSISCGFTIGDGCTTVLTTQASTKVYKSVGSKCSEQ 92

Query: 64 ILE 66
          +LE
Sbjct: 93 VLE 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296088257|emb|CBI14837.3| unnamed protein product [Vitis vinifera]

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 50/63 (79%), Positives = 56/63 (88%)

Query: 4  QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
          +VGSS TDAVW+Y+LTYGGGIVSGDSISC  T+ D CT VLTTQASTKVYKS+GSK SEQ
Sbjct: 33 KVGSSITDAVWIYSLTYGGGIVSGDSISCGFTIGDGCTTVLTTQASTKVYKSVGSKCSEQ 92

Query: 64 ILE 66
          +LE
Sbjct: 93 VLE 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575140|ref|XP_003555700.1| PREDICTED: urease accessory protein ureD-like isoform 1 [Glycine max]

 Score =  103 bits (257), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/66 (74%), Positives = 56/66 (84%)

Query: 4   QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
           +VGSS+TDAVWVY L YGGGIVSGD+ISC+ +V D CT VLTTQ STKVYKS+GSK S+Q
Sbjct: 42  KVGSSKTDAVWVYALNYGGGIVSGDNISCKFSVGDTCTMVLTTQGSTKVYKSVGSKCSQQ 101

Query: 64  ILEMAV 69
           ILE  V
Sbjct: 102 ILEARV 107

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727327|ref|NP_001236645.1| urease accessory protein UreD [Glycine max] gi|24286395|gb|AAN47008.1| urease accessory protein UreD [Glycine max]

 Score =  103 bits (257), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/66 (74%), Positives = 56/66 (84%)

Query: 4  QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
          +VGSS+TDAVWVY L YGGGIVSGD+ISC+ +V D CT VLTTQ STKVYKS+GSK S+Q
Sbjct: 33 KVGSSKTDAVWVYALNYGGGIVSGDNISCKFSVGDTCTMVLTTQGSTKVYKSVGSKCSQQ 92

Query: 64 ILEMAV 69
          ILE  V
Sbjct: 93 ILEARV 98

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255645893|gb|ACU23436.1| unknown [Glycine max]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/66 (74%), Positives = 56/66 (84%)

Query: 4   QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
           +VGSS+TDAVWVY L YGGGIVSGD+ISC+ +V D CT VLTTQ STKVYKS+GSK S+Q
Sbjct: 77  KVGSSKTDAVWVYALNYGGGIVSGDNISCKFSVGDTCTMVLTTQGSTKVYKSVGSKCSQQ 136

Query: 64  ILEMAV 69
           ILE  V
Sbjct: 137 ILEARV 142

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575142|ref|XP_003555701.1| PREDICTED: urease accessory protein ureD-like isoform 2 [Glycine max]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/66 (74%), Positives = 56/66 (84%)

Query: 4   QVGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQ 63
           +VGSS+TDAVWVY L YGGGIVSGD+ISC+ +V D CT VLTTQ STKVYKS+GSK S+Q
Sbjct: 79  KVGSSKTDAVWVYALNYGGGIVSGDNISCKFSVGDTCTMVLTTQGSTKVYKSVGSKCSQQ 138

Query: 64  ILEMAV 69
           ILE  V
Sbjct: 139 ILEARV 144

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30686277|ref|NP_850239.1| urease accessory protein D [Arabidopsis thaliana] gi|31096381|emb|CAC85462.1| putative urease accessory protein D [Arabidopsis thaliana] gi|330253958|gb|AEC09052.1| urease accessory protein D [Arabidopsis thaliana]

 Score =  100 bits (249), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 44/57 (77%), Positives = 52/57 (91%)

Query: 10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILE 66
          TD VW+Y++TYGGGIVSGDSISCE T+ D CTAV+TTQ+STKVYK++GSK SEQILE
Sbjct: 39 TDVVWIYSITYGGGIVSGDSISCEFTIGDGCTAVITTQSSTKVYKAIGSKCSEQILE 95

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|31096385|emb|CAC85464.1| putative urease accessory protein D [Solanum lycopersicum]

 Score = 99.0 bits (245), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 45/67 (67%), Positives = 56/67 (83%), Gaps = 1/67 (1%)

Query: 1  MNPQ-VGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSK 59
          +NP+ V  S+TD VW+Y +TYGGGIVSGDSI C+ T+ D CT VLTTQASTKVYK++G+K
Sbjct: 29 INPKNVAPSQTDVVWIYAITYGGGIVSGDSIVCDYTIGDGCTTVLTTQASTKVYKAVGTK 88

Query: 60 SSEQILE 66
           SEQ+LE
Sbjct: 89 ISEQVLE 95

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	97
TAIR|locus:504956057	294	URED "urease accessory protein	0.618	0.204	0.733	3.9e-21
POMBASE|SPAC3A12.09c	290	SPAC3A12.09c "urease accessory	0.567	0.189	0.375	3.2e-06
UNIPROTKB|G4MQ94	339	MGG_09264 "Urease accessory pr	0.494	0.141	0.395	6.9e-05
ASPGD|ASPL0000046594	357	AN2144 [Emericella nidulans (t	0.474	0.128	0.468	7.5e-05

TAIR|locus:504956057 URED "urease accessory protein D" [Arabidopsis thaliana (taxid:3702)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 44/60 (73%), Positives = 53/60 (88%)

Query:    10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAV 69
             TD VW+Y++TYGGGIVSGDSISCE T+ D CTAV+TTQ+STKVYK++GSK SEQILE  +
Sbjct:    39 TDVVWIYSITYGGGIVSGDSISCEFTIGDGCTAVITTQSSTKVYKAIGSKCSEQILEARI 98

GO:0005737 "cytoplasm" evidence=ISM

GO:0006807 "nitrogen compound metabolic process" evidence=IEA;ISS;IMP

GO:0016151 "nickel cation binding" evidence=IEA;ISS

GO:0048554 "positive regulation of metalloenzyme activity" evidence=IMP

POMBASE|SPAC3A12.09c SPAC3A12.09c "urease accessory protein UreD (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 113 (44.8 bits), Expect = 3.2e-06, P = 3.2e-06
 Identities = 21/56 (37%), Positives = 38/56 (67%)

Query:    15 VYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSL-GSKSSEQILEMAV 69
             +Y ++YGGG+VSGD ++ +I V    T  + +Q +TK+YK + G  +++Q L++ V
Sbjct:    42 LYIMSYGGGLVSGDRVALDIIVGKNATLCIQSQGNTKLYKQIPGKPATQQKLDVEV 97

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016151 "nickel cation binding" evidence=IEA

GO:0019627 "urea metabolic process" evidence=ISM

UNIPROTKB|G4MQ94 MGG_09264 "Urease accessory protein UreD" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 102 (41.0 bits), Expect = 6.9e-05, P = 6.9e-05
 Identities = 19/48 (39%), Positives = 31/48 (64%)

Query:     8 SETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKS 55
             ++  +V V+ L+YGGG+V+GD ++ +I V       + TQ  TKV+KS
Sbjct:    49 TDRQSVLVFLLSYGGGLVAGDQVALDIDVQAGARVSIVTQGYTKVFKS 96

GO:0005575 "cellular_component" evidence=ND

ASPGD|ASPL0000046594 AN2144 [Emericella nidulans (taxid:162425)]

 Score = 102 (41.0 bits), Expect = 7.5e-05, P = 7.5e-05
 Identities = 22/47 (46%), Positives = 30/47 (63%)

Query:    13 VWVYTLTYGGGIVSGDSISCEITVADACTAVLTT-QASTKVYKSLGS 58
             V +Y LTYGGG++ GD I   IT+      V+TT Q STK++K+  S
Sbjct:    62 VHLYLLTYGGGLLPGDQIDVSITLEPRTRLVVTTPQGSTKIFKTEAS 108


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        0.311   0.125   0.347    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       97        85   0.00091  102 3  11 23  0.48    29
                                                     29  0.46    30


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  528 (56 KB)
  Total size of DFA:  96 KB (2068 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:  9.47u 0.15s 9.62t   Elapsed:  00:00:00
  Total cpu time:  9.47u 0.15s 9.62t   Elapsed:  00:00:00
  Start:  Fri May 10 22:08:53 2013   End:  Fri May 10 22:08:53 2013

GO:0016151 "nickel cation binding" evidence=IEA

GO:0006807 "nitrogen compound metabolic process" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	97
pfam01774	204	pfam01774, UreD, UreD urease accessory protein	9e-18
COG0829	269	COG0829, UreH, Urease accessory protein UreH [Post	4e-13
COG4913	1104	COG4913, COG4913, Uncharacterized protein conserve	0.003

>gnl|CDD|216693 pfam01774, UreD, UreD urease accessory protein

 Score = 73.7 bits (182), Expect = 9e-18
 Identities = 20/51 (39%), Positives = 29/51 (56%)

Query: 14 WVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQI 64
           VY L   GG+V GD +  +I +     A+LTTQ +TKVY+S G  + +  
Sbjct: 1  HVYLLHPSGGLVGGDRLDIDIELGAGARALLTTQGATKVYRSEGGPARQTT 51

UreD is a urease accessory protein. Urease pfam00449 hydrolyses urea into ammonia and carbamic acid. UreD is involved in activation of the urease enzyme via the UreD-UreF-UreG-urease complex and is required for urease nickel metallocenter assembly. See also UreF pfam01730, UreG pfam01495. Length = 204

>gnl|CDD|223899 COG0829, UreH, Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]

 Score = 62.3 bits (152), Expect = 4e-13
 Identities = 19/67 (28%), Positives = 37/67 (55%), Gaps = 1/67 (1%)

Query: 9   ETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQI-LEM 67
           +        +   GG+V GD +  +I + D   A++TTQ++TKVY+S G ++++   + +
Sbjct: 41  DEGLCEAMLIHPSGGVVGGDRLEIDIELGDNAKALITTQSATKVYRSPGGQATQTTNITV 100

Query: 68  AVPAIVE 74
              A +E
Sbjct: 101 GENARLE 107

Length = 269

>gnl|CDD|227250 COG4913, COG4913, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 35.0 bits (80), Expect = 0.003
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 13 VWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQIL 65
              T    G +V+G S S + T+ DA TAVL  Q   +   +  + +  + L
Sbjct: 32 DIPVTR--EGILVTGGSGSGKSTLIDAITAVLLPQGKLRFNSAAQANTPRRSL 82

Length = 1104

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	97
COG0829	269	UreH Urease accessory protein UreH [Posttranslatio	99.95
PF01774	209	UreD: UreD urease accessory protein; InterPro: IPR	99.94
PF04314	110	DUF461: Protein of unknown function (DUF461); Inte	86.0

>COG0829 UreH Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=2.5e-27  Score=182.40  Aligned_cols=78  Identities=27%  Similarity=0.414  Sum_probs=73.1

Q ss_pred             CCCCCCCcEEEEEEccCCcccCCceEEEEEEECCCcEEEEeCcccceeeecCCCCcceEEEEeeeceeeCCCceEEEech
Q 034360            5 VGSSETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQ   84 (97)
Q Consensus         5 ~~p~~~~~~~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~lTTQaAtKvy~~~~~~~s~Q~~~v~v~~~ve~gA~Le~lP~   84 (97)
                      ++|+ ++.|++||+|+|||+++||+++++|+++++|+++||||||||||+|.++. ++|+++|    +|++||+|||+||
T Consensus        38 ~y~~-~~~~~~~li~~~GGv~gGD~l~~di~lg~~a~~~iTTQsatKvYrs~~g~-A~Q~~~i----~vg~nA~LewlPq  111 (269)
T COG0829          38 FYPD-EGLCEAMLIHPSGGVVGGDRLEIDIELGDNAKALITTQSATKVYRSPGGQ-ATQTTNI----TVGENARLEWLPQ  111 (269)
T ss_pred             CcCC-CCCeEEEEEeCCCCccccceEEEEEEECCCceEEEEccccceeEeCCCCc-eEEEEEE----EECCCCEEEecCC
Confidence            3566 88999999999999999999999999999999999999999999999998 8899988    6999999999999


Q ss_pred             hhhh
Q 034360           85 QKEK   88 (97)
Q Consensus        85 ~~~~   88 (97)
                      |+|-
T Consensus       112 ~tI~  115 (269)
T COG0829         112 ETIP  115 (269)
T ss_pred             ccee
Confidence            9974

>PF01774 UreD: UreD urease accessory protein; InterPro: IPR002669 UreD is a urease accessory protein

Probab=99.94  E-value=6e-27  Score=172.76  Aligned_cols=71  Identities=32%  Similarity=0.538  Sum_probs=45.4

Q ss_pred             EEEEEccCCcccCCceEEEEEEECCCcEEEEeCcccceeeecCCCCcceEEEEeeeceeeCCCceEEEechhhhh
Q 034360           14 WVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEK   88 (97)
Q Consensus        14 ~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~lTTQaAtKvy~~~~~~~s~Q~~~v~v~~~ve~gA~Le~lP~~~~~   88 (97)
                      |+||+|+|||+++||+++++|+|++||+++||||||||||+|+++..++|++++    +|++||+|||+|||++-
T Consensus         1 h~yl~~~~gGl~~GD~l~~~i~v~~ga~~~ltTqaatkvy~~~~~~~a~q~~~~----~v~~ga~Le~lP~p~I~   71 (209)
T PF01774_consen    1 HVYLMNPSGGLLGGDRLRIDITVGPGARLLLTTQAATKVYRMRGGRPARQRIRI----TVEEGAYLEYLPDPTIP   71 (209)
T ss_dssp             -EEEEE--S-B-TT-EEEEEEEE-TT-EEEEE----EEE---TTS--EEEEEEE----EE-TT-EEEE----EEE
T ss_pred             CEEEEeCCCcCcCCCEEEEEEEECCCCEEEEechhhhhhcCCCCCCcEEEEEEE----EECCCCEEEEcCCCCEe
Confidence            699999999999999999999999999999999999999999988778899988    69999999999999974

Urease IPR005848 from INTERPRO hydrolyses urea into ammonia and carbamic acid []. UreD is involved in activation of the urease enzyme via the UreD-UreF-UreG-urease complex [] and is required for urease nickel metallocentre assembly []. See also UreF IPR002639 from INTERPRO, UreG IPR004400 from INTERPRO.; GO: 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 3SF5_D.

>PF04314 DUF461: Protein of unknown function (DUF461); InterPro: IPR007410 This entry represents a domain found in of proteins of unknown function, including DR1885 from Deinococcus radiodurans and CC3502 from Caulobacter crescentus (Caulobacter vibrioides), which share a potential metal binding motif H(M)X10MX21HXM

Probab=86.00  E-value=2.3  Score=28.27  Aligned_cols=34  Identities=12%  Similarity=0.235  Sum_probs=20.2

Q ss_pred             CcEEEEEEccCCcccCCceEEEEEEECCCcEEEE
Q 034360           11 DAVWVYTLTYGGGIVSGDSISCEITVADACTAVL   44 (97)
Q Consensus        11 ~~~~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~l   44 (97)
                      +-.+++|+..---+..||++.+.++.+.|..+.+
T Consensus        76 gg~HlmL~g~~~~l~~G~~v~ltL~f~~gg~v~v  109 (110)
T PF04314_consen   76 GGYHLMLMGLKRPLKPGDTVPLTLTFEDGGKVTV  109 (110)
T ss_dssp             CCCEEEEECESS-B-TTEEEEEEEEETTTEEEEE
T ss_pred             CCEEEEEeCCcccCCCCCEEEEEEEECCCCEEEe
Confidence            3456666666666666666666666666666554

DR1885 was found to bind copper(I) through a histidine and three Mets in a cupredoxin-like fold []. The surface location of the copper-binding site as well as the type of coordination are well poised for metal transfer chemistry, suggesting that DR1885 might transfer copper, taking the role of Cox17 in bacteria (Cox17 being an accessory protein required for correct assembly of eukaryotic cyochrome c oxidase). ; PDB: 2K6W_A 2K6Z_A 2K6Y_A 2K70_A 1X9L_A 2JQA_A.

---

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	97
3sf5_B	265	Urease accessory protein UREH; UREF, chaperone; 2.	1e-08

>3sf5_B Urease accessory protein UREH; UREF, chaperone; 2.50A {Helicobacter pylori} Length = 265

 Score = 49.6 bits (118), Expect = 1e-08
 Identities = 10/56 (17%), Positives = 26/56 (46%)

Query: 9  ETDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQI 64
          + D   +  L    G++ GD+   ++ +   C   +T+Q+  K++ +    +S  +
Sbjct: 42 KDDLAEIMLLAVSPGMMRGDAQDVQLNIGPNCKLRITSQSFEKIHNTEDGFASRDM 97

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	97
3sf5_B	265	Urease accessory protein UREH; UREF, chaperone; 2.	99.94
2k6w_A	120	Putative uncharacterized protein TTHA1943; PCUA, c	85.48

>3sf5_B Urease accessory protein UREH; UREF, chaperone; 2.50A {Helicobacter pylori}

Probab=99.94  E-value=1.7e-26  Score=175.16  Aligned_cols=74  Identities=16%  Similarity=0.268  Sum_probs=69.0

Q ss_pred             CCcEEEEEEccCCcccCCceEEEEEEECCCcEEEEeCcccceeeecCCCCcceEEEEeeeceeeCCCceEEEechhhhh
Q 034360           10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLTTQASTKVYKSLGSKSSEQILEMAVPAIVEERGVASFFDQQKEK   88 (97)
Q Consensus        10 ~~~~~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~lTTQaAtKvy~~~~~~~s~Q~~~v~v~~~ve~gA~Le~lP~~~~~   88 (97)
                      ++.+++||+|++||+++||+++++|+|++||+++||||||||||+|.++. ++|++++    +|++||+|||+|||+|-
T Consensus        43 ~~~~~v~ll~~~gGl~gGD~l~i~i~v~~ga~~~ltTqaatkvy~~~~~~-a~q~~~~----~v~~ga~Le~lP~p~I~  116 (265)
T 3sf5_B           43 DDLAEIMLLAVSPGMMRGDAQDVQLNIGPNCKLRITSQSFEKIHNTEDGF-ASRDMHI----VVGENAFLDFAPFPLIP  116 (265)
T ss_dssp             TTCEEEEEEECCSCBCTTCEEEEEEEECTTCEEEEECCCCEEECCCTTSC-EEEEEEE----EECTTCEEEECCCCEEE
T ss_pred             CCcEEEEEEcCCCCCcCCCEEEEEEEECCCCEEEEECcccceEEcCCCCc-EEEEEEE----EECCCCEEEecCCCcEe
Confidence            45799999999999999999999999999999999999999999999875 7788888    69999999999999874

>2k6w_A Putative uncharacterized protein TTHA1943; PCUA, copper transfer protein, metal transport; NMR {Thermus thermophilus} PDB: 2k6y_A 2k6z_A 2k70_A

Probab=85.48  E-value=2.5  Score=28.01  Aligned_cols=36  Identities=8%  Similarity=0.127  Sum_probs=32.0

Q ss_pred             CCcEEEEEEccCCcccCCceEEEEEEECCCcEEEEe
Q 034360           10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLT   45 (97)
Q Consensus        10 ~~~~~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~lT   45 (97)
                      |+-.|++|+....-|-.||.+.+.++.+.+..+.++
T Consensus        79 PGG~HvML~gl~~~l~~G~~v~ltL~Fe~~~~v~v~  114 (120)
T 2k6w_A           79 PGGYHFMLLGLKRPLKAGEEVELDLLFAGGKVLKVV  114 (120)
T ss_dssp             TTTEEEEEEEESSCBCTTCEEEEEEEETTTEEEEEE
T ss_pred             CCceEEEEeCCCCCCCCCCEEEEEEEECCCCeEEEE
Confidence            566799999999999999999999999998887764

---

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	97
d1x9la_	149	Hypothetical protein DR1885 {Deinococcus radiodura	80.82

>d1x9la_ b.2.10.1 (A:) Hypothetical protein DR1885 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
superfamily: DR1885-like metal-binding protein
family: DR1885-like metal-binding protein
domain: Hypothetical protein DR1885
species: Deinococcus radiodurans [TaxId: 1299]

Probab=80.82  E-value=0.84  Score=29.67  Aligned_cols=36  Identities=14%  Similarity=0.215  Sum_probs=31.2

Q ss_pred             CCcEEEEEEccCCcccCCceEEEEEEECCCcEEEEe
Q 034360           10 TDAVWVYTLTYGGGIVSGDSISCEITVADACTAVLT   45 (97)
Q Consensus        10 ~~~~~vyl~~~sGGl~~GD~l~i~i~v~~ga~l~lT   45 (97)
                      |+-.|++|++..--|..||.+.+.+..+.|..+.++
T Consensus       104 PGG~HlML~gl~~~l~~Gd~v~ltL~f~~g~~i~v~  139 (149)
T d1x9la_         104 RDGDHVMLMGLKRPLKVGETVNITLKATDGRTLNVA  139 (149)
T ss_dssp             TTSSEEEEEEECSCCCTTEEEEEEECBTTTCCEEEE
T ss_pred             CCceEEEEcCCCCCCCCCCEEEEEEEECCCCEEEEE
Confidence            566799999999999999999999999988887774