RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780677|ref|YP_003065090.1| hypothetical protein
CLIBASIA_02820 [Candidatus Liberibacter asiaticus str. psy62]
(152 letters)
>gnl|CDD|176855 cd07813, COQ10p_like, Coenzyme Q-binding protein COQ10p and similar
proteins. Coenzyme Q-binding protein COQ10p and similar
proteins. COQ10p is a hydrophobic protein located in the
inner membrane of mitochondria that binds coenzyme Q
(CoQ), also called ubiquinone, which is an essential
electron carrier of the respiratory chain. Deletion of
the gene encoding COQ10p (COQ10 or YOL008W) in
Saccharomyces cerevisiae results in respiratory defect
because of the inability to oxidize NADH and succinate.
COQ10p may function in the delivery of CoQ (Q6 in
budding yeast) to its proper location for electron
transport. The human homolog, called Q-binding protein
COQ10 homolog A (COQ10A), is able to fully complement
for the absence of COQ10p in fission yeast. Human COQ10A
also has a splice variant COQ10B. COQ10p belongs to the
SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket and they bind diverse ligands.
Length = 138
Score = 150 bits (382), Expect = 1e-37
Identities = 46/143 (32%), Positives = 80/143 (55%), Gaps = 5/143 (3%)
Query: 4 FTADRIVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYACMQ 63
++ R+V +S++QM LV+D+ERYPEF+P C + ERD + L A +T+ + ++
Sbjct: 1 YSKSRLVPYSAEQMFDLVADVERYPEFLPWCTASRVLERDE----DELEAELTVGFGGIR 56
Query: 64 REFMTQVRINQKEHYIAVKHIKNLFNFLENHWHFEEISESKCKVHFSIKYELKNRLFDMM 123
F ++V + I + + F LE W F+ + E+ CKV F +++E K+RL + +
Sbjct: 57 ESFTSRVTL-VPPESIEAELVDGPFKHLEGEWRFKPLGENACKVEFDLEFEFKSRLLEAL 115
Query: 124 LKAIFDPSFLSFAKAFEERAHKI 146
+FD AFE+RA ++
Sbjct: 116 AGLVFDEVAKKMVDAFEKRAKQL 138
>gnl|CDD|32694 COG2867, COG2867, Oligoketide cyclase/lipid transport protein
[Lipid metabolism].
Length = 146
Score = 129 bits (327), Expect = 2e-31
Identities = 47/150 (31%), Positives = 77/150 (51%), Gaps = 4/150 (2%)
Query: 1 MYHFTADRIVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYA 60
M +V +S+ QM LV+D+E YPEF+P C + ER+ L+A + + +
Sbjct: 1 MPQIERTALVPYSASQMFDLVNDVESYPEFLPWCSASRVLERNERE----LIAELDVGFK 56
Query: 61 CMQREFMTQVRINQKEHYIAVKHIKNLFNFLENHWHFEEISESKCKVHFSIKYELKNRLF 120
++ F T+V + I +K I F +L+ W F +SE CKV F + +E K+RL
Sbjct: 57 GIRETFTTRVTLKPTARSIDMKLIDGPFKYLKGGWQFTPLSEDACKVEFFLDFEFKSRLL 116
Query: 121 DMMLKAIFDPSFLSFAKAFEERAHKIYHLP 150
++ +F +AFE+RA ++Y L
Sbjct: 117 GALIGPVFKRLASKMVEAFEKRAKEVYGLA 146
>gnl|CDD|38387 KOG3177, KOG3177, KOG3177, Oligoketide cyclase/lipid transport
protein [Lipid transport and metabolism].
Length = 227
Score = 88.1 bits (218), Expect = 8e-19
Identities = 42/151 (27%), Positives = 68/151 (45%), Gaps = 5/151 (3%)
Query: 4 FTADRIVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYACMQ 63
++ R++ +S +M S+VS++ Y EFVP CKK + R + L A + + + +
Sbjct: 70 YSERRLIGYSPSEMYSVVSNVSEYHEFVPWCKKSDVTSRR---PSGPLKADLEVGFKPLD 126
Query: 64 REFMTQVRINQKEHYIAVKHIKNLFNFLENHWHFEEIS--ESKCKVHFSIKYELKNRLFD 121
+ + V + V LFN L W F+ C + FS+ +E K+ L
Sbjct: 127 ERYTSNVTCVKPHLTKTVCADGRLFNHLITIWSFKPGPNIPRTCTLDFSVSFEFKSLLHS 186
Query: 122 MMLKAIFDPSFLSFAKAFEERAHKIYHLPSL 152
+ FD AFE+RA K+Y SL
Sbjct: 187 QVATIFFDEVVKQMVNAFEQRARKLYGPESL 217
>gnl|CDD|146152 pfam03364, Polyketide_cyc, Polyketide cyclase / dehydrase and lipid
transport. This family contains polyketide
cylcases/dehydrases which are enzymes involved in
polyketide synthesis. The family also includes proteins
which are involved in the binding/transport of lipids.
Length = 125
Score = 86.0 bits (213), Expect = 4e-18
Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 8/132 (6%)
Query: 10 VNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYACMQREFMTQ 69
V ++Q+ +LV+D+ERYPEF+P CK V + +RD +A + + ++R F +
Sbjct: 1 VPAPAEQVWALVTDVERYPEFLPWCKSVEVLDRDG------SLADWRVAFGGLRRSFTAR 54
Query: 70 VRINQKEHYIAVKHIKNLFNFLENHWHFEEI-SESKCKVHFSIKYELKNRLFDMMLKAIF 128
V Q I + + F LE W FE ++ KV + +E + L +L +F
Sbjct: 55 VT-LQPPERIEMVLVDGDFKRLEGSWRFEPGGPGTRVKVTLELDFEFASPLPGALLGFVF 113
Query: 129 DPSFLSFAKAFE 140
+ +AF
Sbjct: 114 RRVLRTLLEAFR 125
>gnl|CDD|176854 cd07812, SRPBCC, START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC)
ligand-binding domain superfamily. SRPBCC domains have
a deep hydrophobic ligand-binding pocket; they bind
diverse ligands. Included in this superfamily are the
steroidogenic acute regulatory protein (StAR)-related
lipid transfer (START) domains of mammalian
STARD1-STARD15, and the C-terminal catalytic domains of
the alpha oxygenase subunit of Rieske-type non-heme iron
aromatic ring-hydroxylating oxygenases (RHOs_alpha_C),
as well as the SRPBCC domains of phosphatidylinositol
transfer proteins (PITPs), Bet v 1 (the major pollen
allergen of white birch, Betula verrucosa), CoxG, CalC,
and related proteins. Other members of this superfamily
include PYR/PYL/RCAR plant proteins, the
aromatase/cyclase (ARO/CYC) domains of proteins such as
Streptomyces glaucescens tetracenomycin, and the SRPBCC
domains of Streptococcus mutans Smu.440 and related
proteins.
Length = 141
Score = 46.9 bits (111), Expect = 2e-06
Identities = 21/144 (14%), Positives = 48/144 (33%), Gaps = 7/144 (4%)
Query: 4 FTADRIVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYACMQ 63
A + + + L+SD ER+PE+ P ++V + G V +
Sbjct: 1 VEASIEIPAPPEAVWDLLSDPERWPEWSPGLERVEVLGGGEGGVGARFVGGRK---GGRR 57
Query: 64 REFMTQVRINQKEHYIAVKHIKNLFNF-LENHWHFEEISESKCKVHFSIKYELKN---RL 119
++V + W E + +V ++++Y+ ++
Sbjct: 58 LTLTSEVTEVDPPRPGRFRVTGGGGGVDGTGEWRLEPEGDGGTRVTYTVEYDPPGPLLKV 117
Query: 120 FDMMLKAIFDPSFLSFAKAFEERA 143
F ++L + +A + R
Sbjct: 118 FALLLAGALKRELAALLRALKARL 141
>gnl|CDD|176861 cd07819, SRPBCC_2, Ligand-binding SRPBCC domain of an
uncharacterized subfamily of proteins. Uncharacterized
group of the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily. SRPBCC domains have a deep hydrophobic
ligand-binding pocket and they bind diverse ligands.
SRPBCC domains include the steroidogenic acute
regulatory protein (StAR)-related lipid transfer
(START) domains of mammalian STARD1-STARD15, the
C-terminal catalytic domains of the alpha oxygenase
subunit of Rieske-type non-heme iron aromatic
ring-hydroxylating oxygenases (RHOs_alpha_C), Class I
and II phosphatidylinositol transfer proteins (PITPs),
Bet v 1 (the major pollen allergen of white birch,
Betula verrucosa), CoxG, CalC, and related proteins.
Other members of the superfamily include PYR/PYL/RCAR
plant proteins, the aromatase/cyclase (ARO/CYC) domains
of proteins such as Streptomyces glaucescens
tetracenomycin, and the SRPBCC domains of Streptococcus
mutans Smu.440 and related proteins.
Length = 140
Score = 37.2 bits (87), Expect = 0.002
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 10 VNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENE---VLVASMTIN--YAC 61
+ ++ +++D+E YPE+ P K V + RDN G E + V + I YA
Sbjct: 10 IEAPPAAVMDVLADVEAYPEWSPKVKSVEVLLRDNDGRPEMVRIGVGAYGIKDTYAL 66
>gnl|CDD|176885 cd08876, START_1, Uncharacterized subgroup of the steroidogenic
acute regulatory protein (StAR)-related lipid transfer
(START) domain family. Functionally uncharacterized
subgroup of the START domain family. The START domain
family belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. For some mammalian members of the START family
(STARDs), it is known which lipids bind in this pocket;
these include cholesterol (STARD1, -3, -4, and -5),
25-hydroxycholesterol (STARD5), phosphatidylcholine
(STARD2, -7, and -10), phosphatidylethanolamine
(STARD10) and ceramides (STARD11). Mammalian STARDs
participate in the control of various cellular
processes, including lipid trafficking between
intracellular compartments, lipid metabolism, and
modulation of signaling events. Mutation or altered
expression of STARDs is linked to diseases such as
cancer, genetic disorders, and autoimmune disease.
Length = 195
Score = 30.7 bits (70), Expect = 0.18
Identities = 21/106 (19%), Positives = 40/106 (37%), Gaps = 16/106 (15%)
Query: 18 LSLVSDIERYPEFVPLCKKVVIHERDNYGENEV-LVASMTINYACMQREFMTQVRINQK- 75
L+L+ D E YP+++P CK+ + +R + E V V + R+ + + Q
Sbjct: 57 LALLRDTESYPQWMPNCKESRVLKRTDDNERSVYTVIDLPWPVK--DRDMVLRSTTEQDA 114
Query: 76 EHYIAVKHIKNLFNFL------------ENHWHFEEISESKCKVHF 109
+ ++ L E W F + K +V +
Sbjct: 115 DDGSVTITLEAAPEALPEQKGYVRIKTVEGQWTFTPLGNGKTRVTY 160
>gnl|CDD|30968 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 30.5 bits (69), Expect = 0.22
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 10/67 (14%)
Query: 82 KHIKNLFNFLENHW-HFEEISESKCKVHFSIKYELKNRLFDMMLKA------IFDPSFLS 134
+ I LF ++ W + + S + F+ K ELK D + I SF +
Sbjct: 69 ESIDALFATIKKKWGKLDGLVHS---IAFAPKEELKGDYLDTSREGFLIAMDISAYSFTA 125
Query: 135 FAKAFEE 141
AKA
Sbjct: 126 LAKAARP 132
>gnl|CDD|176870 cd08861, OtcD1_ARO-CYC_like, N-terminal and C-terminal
aromatase/cyclase domains of Streptomyces rimosus OtcD1
and related domains. This family includes the N- and C-
terminal aromatase/cyclase (ARO/CYC) domains of
Streptomyces rimosus OtcD1 and related domains. It
belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. ARO/CYC domains participate in the
diversification of aromatic polyketides by promoting
polyketide cyclization. They occur in two architectural
forms, didomain and monodomain. Didomain
aromatase/cyclases (ARO/CYCs), contain two ARO/CYC
domains, and are associated with C7-C12 first ring
cyclized polyketides. Streptomyces rimosus OtcD1 is a
didomain ARO/CYC. The polyketide Oxytetracycline (OTC)
is a broad spectrum antibiotic made by Streptomyces
rimosus. The gene encoding OtcD1 is part of
oxytetracycline (OTC) gene cluster. Disruption of this
gene results in the production of novel polyketides
having shorter chain lengths (by up to 10 carbons) than
OTC. Monodomain ARO/CYCs have a single ARO/CYC domain,
and are often associated with C9-C14 first ring
cyclizations, these latter domains belong to a different
subfamily in the SRPBCC superfamily.
Length = 142
Score = 30.4 bits (69), Expect = 0.22
Identities = 22/97 (22%), Positives = 36/97 (37%), Gaps = 14/97 (14%)
Query: 19 SLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASM---TINYACMQREFMTQVRI-NQ 74
L++D ER+PEF+P V E D G E L M + + T R+ +
Sbjct: 16 DLLADAERWPEFLP-TVHVERLELD--GGVERL--RMWATAFDGSVHT---WTSRRVLDP 67
Query: 75 KEHYIAVKHIKN--LFNFLENHWHFEEISESKCKVHF 109
+ I + + + W FE + +V
Sbjct: 68 EGRRIVFRQEEPPPPVASMSGEWRFEPLGGGGTRVTL 104
>gnl|CDD|176851 cd00177, START, Lipid-binding START domain of mammalian
STARD1-STARD15 and related proteins. This family
includes the steroidogenic acute regulatory protein
(StAR)-related lipid transfer (START) domains of
mammalian STARD1-STARD15, and related domains, such as
the START domain of the Arabidopsis homeobox protein
GLABRA 2. The mammalian STARDs are grouped into 8
subfamilies. This family belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. For some members of this family, specific lipids
that bind in this pocket are known; these include
cholesterol (STARD1/STARD3/ STARD4/STARD5),
25-hydroxycholesterol (STARD5), phosphatidylcholine
(STARD2/ STARD7/STARD10), phosphatidylethanolamine
(STARD10) and ceramides (STARD11). The START domain is
found either alone or in association with other domains.
Mammalian STARDs participate in the control of various
cellular processes including lipid trafficking between
intracellular compartments, lipid metabolism, and
modulation of signaling events. Mutation or altered
expression of STARDs is linked to diseases such as
cancer, genetic disorders, and autoimmune disease. The
Arabidopsis homeobox protein GLABRA 2 suppresses root
hair formation in hairless epidermal root cells.
Length = 193
Score = 29.2 bits (66), Expect = 0.52
Identities = 10/81 (12%), Positives = 34/81 (41%), Gaps = 4/81 (4%)
Query: 9 IVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTINYACMQREF-- 66
++ S +Q+ L+ DI+ ++ ++ + E + +++ + R+F
Sbjct: 46 VIPASPEQVFELLMDIDLRKKWDKNFEEFEVIEEID-EHTDIIYYKTKPPWPVSPRDFVY 104
Query: 67 -MTQVRINQKEHYIAVKHIKN 86
+ +++ + I K + +
Sbjct: 105 LRRRRKLDDGTYVIVSKSVDH 125
>gnl|CDD|37603 KOG2392, KOG2392, KOG2392, Serpin [Defense mechanisms].
Length = 380
Score = 27.3 bits (60), Expect = 1.6
Identities = 10/41 (24%), Positives = 14/41 (34%)
Query: 106 KVHFSIKYELKNRLFDMMLKAIFDPSFLSFAKAFEERAHKI 146
K Y+LK L + + IF S + E I
Sbjct: 276 KFKIEFDYDLKEVLKQLGITDIFSESKADLSGLSESSNLYI 316
>gnl|CDD|176858 cd07816, Bet_v1-like, Ligand-binding bet_v_1 domain of major pollen
allergen of white birch (Betula verrucosa), Bet v 1, and
related proteins. This family includes the ligand
binding domain of Bet v 1 (the major pollen allergen of
white birch, Betula verrucosa) and related proteins. In
addition to birch Bet v 1, this family includes other
plant intracellular pathogenesis-related class 10
(PR-10) proteins, norcoclaurine synthases (NCSs),
cytokinin binding proteins (CSBPs), major latex proteins
(MLPs), and ripening-related proteins. It belongs to the
SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. Members of this family binds a diverse range of
ligands. Bet v 1 can bind brassinosteroids, cytokinins,
flavonoids and fatty acids. Hyp-1, a PR-10 from
Hypericum perforatum/St. John's wort, catalyzes the
condensation of two molecules of emodin to the bioactive
naphthodianthrone hypericin. NCSs catalyze the
condensation of dopamine and 4-hydroxyphenylacetaldehyde
to (S)-norcoclaurine, the first committed step in the
biosynthesis of benzylisoquinoline alkaloids such as
morphine. The role of MLPs is unclear; however, they are
associated with fruit and flower development and in
pathogen defense responses. A number of PR-10 proteins
in this subgroup, including Bet v 1, have in vitro RNase
activity, the biological significance of which is
unclear. Bet v 1 family proteins have a conserved
glycine-rich P (phosphate-binding)-loop proximal to the
entrance of the ligand-binding pocket. However, its
conformation differs from that of the canonical P-loop
structure found in nucleotide-binding proteins. Several
PR-10 members including Bet v1 are allergenic.
Cross-reactivity of Bet v 1 with homologs from plant
foods results in birch-fruit syndrome.
Length = 148
Score = 26.4 bits (59), Expect = 3.5
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 93 NHWHFEEISESKCKVHFSIKYELKN 117
F + C V ++I+YE K
Sbjct: 97 VEIKFVPKGDGGCVVKWTIEYEKKG 121
>gnl|CDD|176695 cd08347, PcpA_C_like, C-terminal domain of Sphingobium
chlorophenolicum 2,6-dichloro-p-hydroquinone
1,2-dioxygenase (PcpA), and similar proteins. The
C-terminal domain of Sphingobium chlorophenolicum
(formerly Sphingomonas chlorophenolica)
2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and
similar proteins. PcpA is a key enzyme in the
pentachlorophenol (PCP) degradation pathway, catalyzing
the conversion of 2,6-dichloro-p-hydroquinone to
2-chloromaleylacetate. This domain belongs to a
conserved domain superfamily that is found in a variety
of structurally related metalloproteins, including the
bleomycin resistance protein, glyoxalase I, and type I
ring-cleaving dioxygenases.
Length = 157
Score = 26.0 bits (58), Expect = 4.2
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 78 YIAVKHIKNLFNFLENHWHFEEISESKCKVHF 109
+ V+ + FL + F E+ E +V
Sbjct: 6 TLTVRDPEATAAFLTDVLGFREVGEEGDRVRL 37
>gnl|CDD|29134 cd02059, ovalbumin_like, The ovalbumin_like group of serpins
contains ovalbumin, the squamous cell carcinoma antigen
1 (SCCA1) and other closely related serpins of clade B
of the serpin superfamily. Ovalbumin, the major protein
component of avian egg white, is a non-inhibitory member
of SERine Proteinase INhibitorS (serpins). In contrast,
SCCA1 inhibits cysteine proteinases such as cathepsin S,
K, L, and papain, a so called cross-class serpin..
Length = 389
Score = 24.9 bits (54), Expect = 8.6
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 98 EEISESKCKVHF-----SIKYELKNRLFDMMLKAIFDPS 131
E + E K +V+ KY LK+ L M + IF S
Sbjct: 272 ENMRERKVEVYLPRFKLEEKYNLKSVLKAMGMTDIFSES 310
>gnl|CDD|37748 KOG2537, KOG2537, KOG2537, Phosphoglucomutase/phosphomannomutase
[Carbohydrate transport and metabolism].
Length = 539
Score = 24.9 bits (54), Expect = 9.2
Identities = 11/52 (21%), Positives = 21/52 (40%)
Query: 6 ADRIVNHSSQQMLSLVSDIERYPEFVPLCKKVVIHERDNYGENEVLVASMTI 57
A ++VN SSQ + ++ I V+ RD + L+ ++
Sbjct: 95 ATQLVNASSQALERELAKILEKEALGTTVSAHVVVGRDTRPSSPRLLNAVRD 146
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.326 0.136 0.409
Gapped
Lambda K H
0.267 0.0607 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,911,483
Number of extensions: 94532
Number of successful extensions: 335
Number of sequences better than 10.0: 1
Number of HSP's gapped: 327
Number of HSP's successfully gapped: 23
Length of query: 152
Length of database: 6,263,737
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,426,972
Effective search space: 296607124
Effective search space used: 296607124
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.5 bits)