RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780470|ref|YP_003064883.1| translation initiation factor
IF-1 [Candidatus Liberibacter asiaticus str. psy62]
(110 letters)
>gnl|CDD|178954 PRK00276, infA, translation initiation factor IF-1; Validated.
Length = 72
Score = 105 bits (264), Expect = 3e-24
Identities = 42/110 (38%), Positives = 55/110 (50%), Gaps = 38/110 (34%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVD 60
M KE+ +E G V E LPNA FRV+L E+G E
Sbjct: 1 MAKEDVIEMEGTVVEALPNAMFRVEL----------------------ENGHE------- 31
Query: 61 PISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
V+A+ +G+MRK+ IRI GDKV V ++PYD+T+ RITYR K
Sbjct: 32 ---------VLAHISGKMRKNYIRILPGDKVTVELSPYDLTKGRITYRHK 72
>gnl|CDD|183529 PRK12442, PRK12442, translation initiation factor IF-1; Reviewed.
Length = 87
Score = 81.8 bits (202), Expect = 3e-17
Identities = 41/110 (37%), Positives = 54/110 (49%), Gaps = 38/110 (34%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVD 60
M KEE +E GIV E+LP++ FRV L E+G
Sbjct: 1 MAKEELIELDGIVDEVLPDSRFRVTL--------------------------ENG----- 29
Query: 61 PISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
V AY +GRMRKHRIRI GD+V + ++PYD+T+ RI +R K
Sbjct: 30 -------VEVGAYASGRMRKHRIRILAGDRVTLELSPYDLTKGRINFRHK 72
>gnl|CDD|129120 TIGR00008, infA, translation initiation factor IF-1. This family
consists of translation initiation factor IF-1 as found
in bacteria and chloroplasts. This protein, about 70
residues in length, consists largely of an S1 RNA
binding domain (pfam00575).
Length = 68
Score = 73.9 bits (182), Expect = 8e-15
Identities = 39/106 (36%), Positives = 51/106 (48%), Gaps = 38/106 (35%)
Query: 3 KEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVDPI 62
KE+ +E G V+E LPNA FRV+L N
Sbjct: 1 KEDKIEMEGKVTESLPNAMFRVEL-ENGH------------------------------- 28
Query: 63 SYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYR 108
V+A+ +G++R H IRI GDKVKV ++PYD+TR RITYR
Sbjct: 29 ------EVLAHISGKIRMHYIRILPGDKVKVELSPYDLTRGRITYR 68
>gnl|CDD|163434 TIGR03722, arch_KAE1, universal archaeal protein Kae1. This family
represents the archaeal protein Kae1. Its partner Bud32
is fused with it in about half of the known archaeal
genomes. The pair, which appears universal in the
archaea, corresponds to EKC/KEOPS complex in eukaryotes.
A recent characterization of the member from Pyrococcus
abyssi, as an iron-binding, atypical DNA-binding protein
with an apurinic lyase activity, challenges the common
annotation of close homologs as O-sialoglycoprotein
endopeptidase. The latter annotation is based on a
characterized protein from the bacterium Pasteurella
haemolytica.
Length = 322
Score = 30.3 bits (69), Expect = 0.10
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 61 PISYL-DNAVVIAYTAGRMRKHRIRISLGD 89
P Y DN +IAYT M KH + I + +
Sbjct: 277 PPEYAGDNGAMIAYTGLLMYKHGVTIPVEE 306
>gnl|CDD|181985 PRK09605, PRK09605, bifunctional UGMP family
protein/serine/threonine protein kinase; Validated.
Length = 535
Score = 29.1 bits (66), Expect = 0.28
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 66 DNAVVIAYTAGRMRKHRIRISLGD 89
DN +IA+ M K + + D
Sbjct: 286 DNGAMIAWLGLLMYKAGDTLDIED 309
>gnl|CDD|184878 PRK14878, PRK14878, UGMP family protein; Provisional.
Length = 323
Score = 28.7 bits (65), Expect = 0.35
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 66 DNAVVIAYTAGRMRKHRIRISLGD 89
DN +IAYT KH + I +
Sbjct: 282 DNGAMIAYTGLLAYKHGVTIPPEE 305
>gnl|CDD|180392 PRK06084, PRK06084, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 425
Score = 26.0 bits (57), Expect = 2.2
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 12 IVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSES-GSESGN 56
+++ LP + +DD ++ + +D + K+ F ES G+ +GN
Sbjct: 113 LLAHTLPRIGIETRFAAHDDIAALEALIDERTKAVFCESIGNPAGN 158
>gnl|CDD|162066 TIGR00845, caca, sodium/calcium exchanger 1. This model is
specific for the eukaryotic sodium ion/calcium ion
exchangers of the Caca family.
Length = 928
Score = 25.9 bits (57), Expect = 2.3
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 4 EETLEFSGIVSELLPNANFRVKLITN 29
EE+ EF V +L+ N + + T+
Sbjct: 672 EESYEFKSTVDKLIKKTNLALVVGTH 697
>gnl|CDD|179708 PRK04012, PRK04012, translation initiation factor IF-1A;
Provisional.
Length = 100
Score = 25.3 bits (56), Expect = 3.2
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 76 GRMRKHRIRISLGDKVKVAMNPYDMTRARITYRF 109
G+M+K R+ I GD V VA + +A I +R+
Sbjct: 52 GKMKK-RMWIREGDVVIVAPWDFQDEKADIIWRY 84
>gnl|CDD|181528 PRK08661, PRK08661, prolyl-tRNA synthetase; Provisional.
Length = 477
Score = 25.5 bits (57), Expect = 3.4
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 3 KEETLEFSGIVSELLPNANFRVKLITNDDDS 33
KEE LE++ ++E L A RVKL DD S
Sbjct: 302 KEEVLEYAKELAEELKKAGIRVKL---DDRS 329
>gnl|CDD|182796 PRK10871, nlpD, lipoprotein NlpD; Provisional.
Length = 319
Score = 25.2 bits (55), Expect = 4.1
Identities = 17/38 (44%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 40 DSKVKSNFSESGSESGNDGVDPISYLDNAVVIAYTAGR 77
D KV NFS SE GN G+D I+ +IA GR
Sbjct: 205 DGKVIENFS--ASEGGNKGID-IAGSKGQAIIATADGR 239
>gnl|CDD|162469 TIGR01657, P-ATPase-V, P-type ATPase of unknown pump specificity
(type V). These P-type ATPases form a distinct clade
but the substrate of their pumping activity has yet to
be determined. This clade has been designated type V in.
Length = 1054
Score = 25.0 bits (55), Expect = 4.6
Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 17/97 (17%)
Query: 3 KEETLEFSGIVSELLPNANFRVKLITNDDDSSA-----DCKLDSK----VKSNFSESGSE 53
K +T E V + L A+ R +IT D+ +A +C + + + + S
Sbjct: 658 KPDTKE----VIKELKRASIRTVMITGDNPLTAVHVARECGIVNPSNTLILAEAEPPESG 713
Query: 54 SGN----DGVDPISYLDNAVVIAYTAGRMRKHRIRIS 86
N + +D I + V I Y G+ + S
Sbjct: 714 KPNQIKFEVIDSIPFASTQVEIPYPLGQDSVEDLLAS 750
>gnl|CDD|162275 TIGR01263, 4HPPD, 4-hydroxyphenylpyruvate dioxygenase. This
protein oxidizes 4-hydroxyphenylpyruvate, a tyrosine and
phenylalanine catabolite, to homogentisate.
Homogentisate can undergo a further non-enzymatic
oxidation and polymerization into brown pigments that
protect some bacterial species from light. A similar
process occurs spontaneously in blood and is hemolytic
(see PubMed:8000039). In some bacterial species, this
enzyme has been studied as a hemolysin.
Length = 353
Score = 24.6 bits (54), Expect = 5.4
Identities = 8/29 (27%), Positives = 17/29 (58%)
Query: 8 EFSGIVSELLPNANFRVKLITNDDDSSAD 36
E+S + S ++ + + +VK+ N+ S D
Sbjct: 195 EYSALNSIVMASPDGKVKIPLNEPASGKD 223
>gnl|CDD|163429 TIGR03717, R_switched_YjbE, integral membrane protein, YjbE
family. Rfam model RF00080 describes a structured RNA
element called the yybP-ykoY leader, or SraF, which may
precede one or several genes in a genome. Members of
this highly hydrophobic protein family commonly are
preceded by a yybP-ykoY leader, which may serve as a
riboswitch. From the larger group of TerC homologs
(pfam03741), this subfamily contains protein YjbE from
Bacillus subtilis. A transport function is proposed.
Length = 176
Score = 24.8 bits (55), Expect = 5.5
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 66 DNAVVIAYTAGRMRKH 81
DNAVVIA A + H
Sbjct: 15 DNAVVIALAARNLPAH 30
>gnl|CDD|152593 pfam12158, DUF3592, Protein of unknown function (DUF3592). This
family of proteins is functionally uncharacterized.This
family of proteins is found in bacteria, archaea,
eukaryotes and viruses. Proteins in this family are
typically between 150 and 242 amino acids in length.
Length = 134
Score = 24.7 bits (54), Expect = 5.6
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 9/50 (18%)
Query: 69 VVIAYTA--GRMRKHRIRIS-------LGDKVKVAMNPYDMTRARITYRF 109
V+ + GR + R +G++V V +P + +ARI R
Sbjct: 60 PVVEFRYDDGRRIRFRSGSGSNPPGYRVGERVPVYYDPDNPEQARIDRRG 109
>gnl|CDD|165300 PHA02999, PHA02999, Hypothetical protein; Provisional.
Length = 382
Score = 24.3 bits (53), Expect = 6.5
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 92 KVAMNPYDMTRARITYRF 109
KV++NPY MT++ + Y F
Sbjct: 170 KVSVNPYSMTKSLMNYMF 187
>gnl|CDD|181794 PRK09355, PRK09355, hydroxyethylthiazole kinase; Validated.
Length = 263
Score = 24.4 bits (54), Expect = 6.8
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 43 VKSNFSE----SGSESGNDGVDPISYLDNAVVIAYTAGR 77
++ N SE +G + GVD +AV IA A +
Sbjct: 116 IRGNASEIAALAGEAAETKGVDSTDGSADAVEIAKAAAK 154
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.315 0.132 0.365
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,698,218
Number of extensions: 90843
Number of successful extensions: 185
Number of sequences better than 10.0: 1
Number of HSP's gapped: 185
Number of HSP's successfully gapped: 32
Length of query: 110
Length of database: 5,994,473
Length adjustment: 76
Effective length of query: 34
Effective length of database: 4,352,265
Effective search space: 147977010
Effective search space used: 147977010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 50 (23.0 bits)