RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780935|ref|YP_003065348.1| rare lipoprotein A [Candidatus
Liberibacter asiaticus str. psy62]
(276 letters)
>gnl|CDD|31140 COG0797, RlpA, Lipoproteins [Cell envelope biogenesis, outer
membrane].
Length = 233
Score = 168 bits (426), Expect = 1e-42
Identities = 86/186 (46%), Positives = 108/186 (58%), Gaps = 9/186 (4%)
Query: 13 SVVCVVVLGMSSCFFSSTYKDDKL--EYFPESMYGVTASDRIVSGKRVPRGGGRYFLGKP 70
V ++ L + C F E +YGV A R K G GR KP
Sbjct: 9 CVAALLALLAACCSTKKVPSGMTRSKYNFNEQVYGVKADPRDNPLK----GSGRLTANKP 64
Query: 71 YQIMGRWYVPRQYTA-YAAVGMASWYGKAFHGRLTANGEVYGTEYITAAHPTLPLPSYVR 129
YQ+ G+ Y P+ A + VG ASWYG+ FHGR TANGE Y +TAAH TLPLP+YVR
Sbjct: 65 YQVKGKSYYPKAEPASFEQVGYASWYGEKFHGRKTANGERYDMNALTAAHKTLPLPTYVR 124
Query: 130 VTNMENGISLVVRVNDRGPYHSNRLIDLSNAAAKILRVEERGVSKVHVEYLGMA--LLNG 187
VTN++NG S+VVR+NDRGP+ S R+IDLS AAA L + GV+KV +E LG+A L G
Sbjct: 125 VTNLDNGRSVVVRINDRGPFVSGRIIDLSKAAADKLGMIRSGVAKVRIEVLGVASASLPG 184
Query: 188 MDQEYL 193
+ L
Sbjct: 185 NASKTL 190
>gnl|CDD|146125 pfam03330, DPBB_1, Rare lipoprotein A (RlpA)-like double-psi
beta-barrel. Rare lipoprotein A (RlpA) contains a
conserved region that has the double-psi beta-barrel
(DPBB) fold. The function of RlpA is not well
understood, but it has been shown to act as a prc mutant
suppressor in Escherichia coli. The DPBB fold is often
an enzymatic domain. The members of this family are
quite diverse, and if catalytic this family may contain
several different functions. Another example of this
domain is found in the N terminus of pollen allergen.
Length = 76
Score = 64.9 bits (159), Expect = 2e-11
Identities = 34/92 (36%), Positives = 42/92 (45%), Gaps = 17/92 (18%)
Query: 88 AVGMASWYGKAFHGRLTANGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRVNDRG 147
A G AS Y TA GE Y + +TAA P+Y RVT S+ V + DR
Sbjct: 2 AAGSASLYNDG-----TACGECYQVKCLTAA-----FPTYCRVTR-----SVTVTITDRC 46
Query: 148 PYHSNRLIDLSNAAAKILRVEERGVSKVHVEY 179
P+ R DLS A + L G+ V VEY
Sbjct: 47 PFPPRRHFDLSGPAFEALAKPRAGI--VPVEY 76
>gnl|CDD|146739 pfam04257, Exonuc_V_gamma, Exodeoxyribonuclease V, gamma subunit.
The Exodeoxyribonuclease V enzyme is a multi-subunit
enzyme comprised of the proteins RecB, RecC (this
family) and RecD. This enzyme plays an important role in
homologous genetic recombination, repair of double
strand DNA breaks resistance to UV irradiation and
chemical DNA-damage. The enzyme (EC:3.1.11.5) catalyses
ssDNA or dsDNA-dependent ATP hydrolysis, hydrolysis of
ssDNA or dsDNA and unwinding of dsDNA. This family
consists of two AAA domains.
Length = 1008
Score = 29.9 bits (68), Expect = 0.79
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 149 YHSNRLIDLSNAAAKILRVE 168
YHSNRL L++ AK+LR+E
Sbjct: 5 YHSNRLEVLADLLAKLLRLE 24
>gnl|CDD|110355 pfam01347, Vitellogenin_N, Lipoprotein amino terminal region. This
family contains regions from: Vitellogenin, Microsomal
triglyceride transfer protein and apolipoprotein B-100.
These proteins are all involved in lipid transport. This
family contains the LV1n chain from lipovitellin, that
contains two structural domains.
Length = 579
Score = 28.8 bits (65), Expect = 1.9
Identities = 7/40 (17%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 188 MDQEYLRSTVMVNSATVLPLGCQYREEIV------VIPYL 221
+Q YL ++ ++ +++ C + +IP L
Sbjct: 413 QNQPYLNTSALLAYGSLVRRYCVNNNKHTPACPEELIPPL 452
>gnl|CDD|146350 pfam03665, UPF0172, Uncharacterized protein family (UPF0172). In
Chlamydomonas reinhardtii the protein TLA1 (truncated
light-harvesting chlorophyll antenna size) apparently
regulates genes that define the chlorophyll-a antenna
size in the photosynthetic apparatus. This family was
formerly known as UPF0172.
Length = 195
Score = 28.0 bits (63), Expect = 2.7
Identities = 27/103 (26%), Positives = 39/103 (37%), Gaps = 24/103 (23%)
Query: 101 GRLTANGEVYGTEYITAAHPTLPLPSYVRVTNM-------ENGISLVVRVNDRGPYHSNR 153
G+ T + V T+ + H TL L + V + G+ +V G YH+N
Sbjct: 32 GKSTKSSSVLITDAVPLFHSTLALAPMLEVALAQVESYAKQKGLVIV------GYYHANE 85
Query: 154 LID---LSNAAAKILRVEERGVSKVHVEYLGMALLNGMDQEYL 193
D S A KI K+ E A+L +D E L
Sbjct: 86 RFDDSSPSPVAKKIA-------DKIA-ENFNNAVLLLVDNEKL 120
>gnl|CDD|31912 COG1726, NqrA, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrA [Energy production and conversion].
Length = 447
Score = 27.6 bits (61), Expect = 4.3
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 101 GRLTANGEVYGTEYITAAHPTLPLPSYVRVT 131
G+L GE+ + A P + P VR
Sbjct: 249 GKLFLTGELLTERVVALAGPQVNKPRLVRTV 279
>gnl|CDD|146761 pfam04293, SpoVR, SpoVR like protein. One family member is the
Bacillus subtilis stage V sporulation protein R, which
is involved in spore cortex formation. Little is known
about cortex biosynthesis, except that it depends on
several sigma E controlled genes, including spoVR.
Length = 427
Score = 27.5 bits (62), Expect = 4.4
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 13/36 (36%)
Query: 70 PYQIMGRWYVPRQYTAYAAVGMAS----W-YGKAFH 100
+ M Y AYA+VGM + W +GK F
Sbjct: 36 TAEQM--------YDAYASVGMPTRYPHWSFGKHFE 63
>gnl|CDD|163605 pfam04080, Per1, Per1-like. PER1 is required for GPI-phospholipase
A2 activity and is involved in lipid remodelling of
GPI-anchored proteins.
Length = 264
Score = 27.6 bits (62), Expect = 4.4
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 64 RYFLGKPYQIMGRWYVPRQYTAYAAVGMASWYGKA-FHGR 102
R+ PY + R Y YA VGM +W A FH R
Sbjct: 74 RFRRLVPYNLPLRPTRKGNYIIYAIVGMNAWIWSAIFHTR 113
>gnl|CDD|111979 pfam03141, DUF248, Putative methyltransferase. Members of this
family of hypothetical plant proteins are probably
methyltransferases: several of the aligned sequences
either match the methyltransferase profile, or contain a
SAM-binding motif. A protein from Arabidopsis thaliana
contains both. Several family members are described as
ankyrin like.
Length = 506
Score = 26.9 bits (60), Expect = 6.2
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 18/56 (32%)
Query: 233 CDDDSLQKQREISL-----RER------KKSN-LIPLPNGYSPPRKMGKIPIP-SR 275
C D+ + +S RER +K L+P P+GY P IP P SR
Sbjct: 5 CLDNDRAIKFLLSRERMEHRERHCPPSEEKLRCLVPPPDGYKTP-----IPWPKSR 55
>gnl|CDD|177149 MTH00080, COX2, cytochrome c oxidase subunit II; Provisional.
Length = 231
Score = 26.5 bits (59), Expect = 7.4
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 4 FSCDCLLKGSVV-CVVVLGMSSCFFSSTYKDDKLEYF 39
F+C L V+ VV L + + +K K+EY
Sbjct: 25 FNCSLLFGEFVLAFVVFLFLYLISNNFYFKSKKIEYQ 61
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
0.321 0.137 0.415
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,463,661
Number of extensions: 180479
Number of successful extensions: 287
Number of sequences better than 10.0: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 11
Length of query: 276
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 184
Effective length of database: 4,275,709
Effective search space: 786730456
Effective search space used: 786730456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.6 bits)