RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780640|ref|YP_003065053.1| hypothetical protein
CLIBASIA_02635 [Candidatus Liberibacter asiaticus str. psy62]
(110 letters)
>gnl|CDD|178835 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 40.9 bits (97), Expect = 7e-05
Identities = 14/42 (33%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 32 IEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWL 73
+ ++ FR + E +E + + ++ G+NG GK++L EAI L
Sbjct: 6 LSLTDFRNYEE-LDLELSPGVNVLVGENGQGKTNLLEAIYLL 46
>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional.
Length = 895
Score = 40.3 bits (94), Expect = 1e-04
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 46 IEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKK 89
IEF + I+ G+NG GKSS+ +AI + + + K D IKK
Sbjct: 19 IEFDTGINIITGKNGAGKSSIVDAIRFALFTDKRTEKIEDMIKK 62
>gnl|CDD|161957 TIGR00611, recf, recF protein. All proteins in this family for
which functions are known are DNA binding proteins that
assist the filamentation of RecA onto DNA for the
initiation of recombination or recombinational repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 365
Score = 38.9 bits (91), Expect = 3e-04
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 5/65 (7%)
Query: 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSI 87
L +E++ FR + + +E + + ++ G NG GK++L EAI +L R H S
Sbjct: 2 YLSRLELTDFRNYDAV-DLELSPGVNVIVGPNGQGKTNLLEAIYYL----ALGRSHRTSR 56
Query: 88 KKRSI 92
K I
Sbjct: 57 DKPLI 61
>gnl|CDD|162739 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing
and segregating chromosomes for partition. SMC proteins
are found in bacteria, archaea, and eukaryotes. This
family represents the SMC protein of most bacteria. The
smc gene is often associated with scpB (TIGR00281) and
scpA genes, where scp stands for segregation and
condensation protein. SMC was shown (in Caulobacter
crescentus) to be induced early in S phase but present
and bound to DNA throughout the cell cycle.
Length = 1179
Score = 38.9 bits (91), Expect = 3e-04
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 32 IEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEW 72
+E++ F+ F + I F +T + G NG GKS++ +AI W
Sbjct: 5 LELAGFKSFADPTTINFDKGITGIVGPNGCGKSNIVDAIRW 45
>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University).
Length = 1042
Score = 38.8 bits (90), Expect = 3e-04
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 2/76 (2%)
Query: 28 KLLDIEISHFRGFTEIQKIEFA--DHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD 85
K L + + +F + I+F + ++ G+ G GK++L +AI + YG RR
Sbjct: 2 KPLRLTLKNFGSYKGTHTIDFTALGPIFLICGKTGAGKTTLLDAITYALYGKLPRRSEVI 61
Query: 86 SIKKRSIKTPMPMCMA 101
P A
Sbjct: 62 RSLNSLYAAPSEAAFA 77
>gnl|CDD|179675 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 36.6 bits (85), Expect = 0.001
Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 3/62 (4%)
Query: 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSI 87
K+ +++I +FR + +EF D + ++ GQNG GKSS+ EAI Y + G +
Sbjct: 2 KIEELKIKNFRSH-KSSVVEFDDGINLIIGQNGSGKSSILEAILVGLYWGHGSKPKG--L 58
Query: 88 KK 89
KK
Sbjct: 59 KK 60
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 36.2 bits (84), Expect = 0.002
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76
+ + + +F+ + + + D +T+++G NG GKSSL EA + YG
Sbjct: 2 RFDRVRLENFKCYADAD-LRLEDGVTVIHGVNGSGKSSLLEACFFALYG 49
>gnl|CDD|162740 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance
of chromosomes) proteins bind DNA and act in organizing
and segregating chromosomes for partition. SMC proteins
are found in bacteria, archaea, and eukaryotes. It is
found in a single copy and is homodimeric in
prokaryotes, but six paralogs (excluded from this
family) are found in eukarotes, where SMC proteins are
heterodimeric. This family represents the SMC protein
of archaea and a few bacteria (Aquifex, Synechocystis,
etc); the SMC of other bacteria is described by
TIGR02168. The N- and C-terminal domains of this
protein are well conserved, but the central hinge
region is skewed in composition and highly divergent.
Length = 1164
Score = 33.1 bits (76), Expect = 0.015
Identities = 17/43 (39%), Positives = 29/43 (67%), Gaps = 2/43 (4%)
Query: 32 IEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLF 74
IE+ +F+ F + + I F+ T+++G NG GKS++ +AI LF
Sbjct: 5 IELENFKSFGKKKVIPFSKGFTVISGPNGSGKSNIGDAI--LF 45
>gnl|CDD|161971 TIGR00634, recN, DNA repair protein RecN. All proteins in this
family for which functions are known are ATP binding
proteins involved in the initiation of recombination
and recombinational repair.
Length = 563
Score = 31.6 bits (72), Expect = 0.044
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLF 74
L ++ I++F + +EF LT++ G+ G GKS + +A+ L
Sbjct: 2 LTELRINNF-ALIRVLTVEFERGLTVLTGETGAGKSMIIDALSLLG 46
>gnl|CDD|129694 TIGR00606, rad50, rad50. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University).
Length = 1311
Score = 29.6 bits (66), Expect = 0.16
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 42 EIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76
+ Q I+F LTI+ G NG GK+++ E ++++ G
Sbjct: 20 DKQIIDFFSPLTILVGPNGAGKTTIIECLKYICTG 54
>gnl|CDD|178861 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 29.8 bits (68), Expect = 0.16
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 48 FADHLTIVNGQNGYGKSSLSEAIE 71
A +T++ GQ+G GKS+L A+
Sbjct: 162 LAGKVTVLAGQSGVGKSTLLNALA 185
>gnl|CDD|184491 PRK14079, recF, recombination protein F; Provisional.
Length = 349
Score = 29.8 bits (67), Expect = 0.17
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIE 71
+LL + ++R + F +T V G+N GK++L EAI
Sbjct: 2 RLLSLRQLNYRNLA-PPTLAFPPGVTAVVGENAAGKTNLLEAIY 44
>gnl|CDD|183407 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 29.6 bits (67), Expect = 0.20
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 10/66 (15%)
Query: 10 CACLSKS-LTSYYARKLI--------FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNG 60
CL+K+ L S ++ ++ L I + G + + + + +T+V G +G
Sbjct: 124 VLCLNKADLVSPTEQQQWQDRLQQWGYQPLFISVETGIGLEALLE-QLRNKITVVAGPSG 182
Query: 61 YGKSSL 66
GKSSL
Sbjct: 183 VGKSSL 188
>gnl|CDD|183406 PRK12288, PRK12288, GTPase RsgA; Reviewed.
Length = 347
Score = 29.0 bits (66), Expect = 0.27
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 23 RKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSL 66
R + +++L + G E++ ++I GQ+G GKSSL
Sbjct: 179 RNIGYRVLMVSSHTGEGLEELEA-ALTGRISIFVGQSGVGKSSL 221
>gnl|CDD|161735 TIGR00157, TIGR00157, ribosome small subunit-dependent GTPase A.
The Aquifex aeolicus ortholog is split into consecutive
open reading frames. Consequently, this model was build
in fragment mode (-f option).
Length = 245
Score = 28.1 bits (63), Expect = 0.54
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 47 EFADHLTIVNGQNGYGKSSLSEAI 70
+ +++ GQ+G GKSSL A+
Sbjct: 117 ALQNRISVFAGQSGVGKSSLINAL 140
>gnl|CDD|150128 pfam09352, DUF1994, Domain of unknown function (DUF1994). This
family of proteins are functionally uncharacterized.
Length = 162
Score = 27.7 bits (62), Expect = 0.73
Identities = 20/85 (23%), Positives = 30/85 (35%), Gaps = 15/85 (17%)
Query: 3 RLRKKNTCACLSKSLTSYYARKLIFKLLDIEISHF-----------RGFTEIQKIEFA-- 49
+ CA S +L Y K I ++I H +T+ Q+ FA
Sbjct: 48 TFKTGKRCAVASGTLHDPYTGKTITTAAAVDIDHVVPLAEAWDSGASSWTDRQRERFAND 107
Query: 50 -DHLTIVNGQNGYGKSSLSEAIEWL 73
+L V+G K + EWL
Sbjct: 108 PANLLAVDGSANRSKGD-KDPAEWL 131
>gnl|CDD|182751 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 26.9 bits (60), Expect = 1.1
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 7/39 (17%)
Query: 60 GYGKSSLSEAIEW-LFYGYTQRRKHGDSIKKRSIKTPMP 97
G GKS+ EA++W L + R KH ++IKK + P P
Sbjct: 172 GVGKSA--EALQWDLSF----RLKHWEAIKKAAESRPAP 204
>gnl|CDD|177394 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 26.9 bits (60), Expect = 1.2
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 40 FTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76
EIQ + T++ G+NG GKS++ EA+ + +G
Sbjct: 19 PIEIQLDKVKK--TLITGKNGAGKSTMLEALTFALFG 53
>gnl|CDD|184126 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 26.4 bits (59), Expect = 1.6
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 48 FADHLTIVNGQNGYGKSSL 66
A ++ G NG GK++L
Sbjct: 26 AAGEALVLTGPNGSGKTTL 44
>gnl|CDD|163431 TIGR03719, ABC_ABC_ChvD, ATP-binding cassette protein, ChvD
family. Members of this protein family have two copies
of the ABC transporter ATP-binding cassette, but are
found outside the common ABC transporter operon
structure that features integral membrane permease
proteins and substrate-binding proteins encoded next to
the ATP-binding cassette (ABC domain) protein. The
member protein ChvD from Agrobacterium tumefaciens was
identified as both a candidate to interact with VirB8,
based on yeast two-hybrid analysis, and as an apparent
regulator of VirG. The general function of this protein
family is unknown.
Length = 552
Score = 26.4 bits (59), Expect = 1.8
Identities = 21/66 (31%), Positives = 25/66 (37%), Gaps = 25/66 (37%)
Query: 1 MTRLRKKNTCACLSKSLTSYYARKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNG 60
M R+ K +K I K DI +S F G KI V G NG
Sbjct: 7 MNRVSK------------VVPPKKEILK--DISLSFFPG----AKIG-------VLGLNG 41
Query: 61 YGKSSL 66
GKS+L
Sbjct: 42 AGKSTL 47
>gnl|CDD|162972 TIGR02680, TIGR02680, conserved hypothetical protein TIGR02680.
Members of this protein family belong to a conserved
gene four-gene neighborhood found sporadically in a
phylogenetically broad range of bacteria: Nocardia
farcinica, Symbiobacterium thermophilum, and
Streptomyces avermitilis (Actinobacteria), Geobacillus
kaustophilus (Firmicutes), Azoarcus sp. EbN1 and
Ralstonia solanacearum (Betaproteobacteria). Proteins
in this family average over 1400 amino acids in length.
Length = 1353
Score = 26.3 bits (58), Expect = 2.0
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 44 QKIEFADHLTIVNGQNGYGKS-SLSEAIEWLFYGY 77
Q+ F D ++ G NG GKS L + +L G
Sbjct: 18 QEFWFRDGRLLLRGNNGAGKSKVLELLLPFLLDGK 52
>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
protein ModF; Provisional.
Length = 490
Score = 26.1 bits (58), Expect = 2.1
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 50 DHLTIVNGQ-------NGYGKSSLSEAIE 71
LT+ G NG GKS+L+ A+
Sbjct: 22 PSLTLNAGDSWAFVGANGSGKSALARALA 50
>gnl|CDD|152563 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins
in this family are typically between 943 to 1234 amino
acids in length. There are two conserved sequence
motifs: GKT and YLP.
Length = 1192
Score = 25.8 bits (57), Expect = 2.3
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 35 SHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76
SH G + +++ H T + G N GK++L I LFYG
Sbjct: 5 SHLPGV--VNELDLDGH-TNICGTNAAGKTTLQRLIP-LFYG 42
>gnl|CDD|163250 TIGR03410, urea_trans_UrtE, urea ABC transporter, ATP-binding
protein UrtE. Members of this protein family are ABC
transporter ATP-binding subunits associated with urea
transport and metabolism. This protein is found in a
conserved five-gene transport operon typically found
adjacent to urease genes. It was shown in Cyanobacteria
that disruption leads to the loss of high-affinity urea
transport activity.
Length = 230
Score = 25.6 bits (57), Expect = 2.7
Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 13/56 (23%)
Query: 15 KSLTSYYARKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAI 70
+L YY + I + + +E+ +T V G+NG GK++L + +
Sbjct: 4 SNLNVYYGQSHILRGVSLEVP-------------KGEVTCVLGRNGVGKTTLLKTL 46
>gnl|CDD|162608 TIGR01928, menC_lowGC/arch, o-succinylbenzoic acid (OSB)
synthetase. This model describes the enzyme
o-succinylbenzoic acid synthetase (menC) that is
involved in one of the steps of the menaquinone
biosynthesis pathway. It takes SHCHC and makes it into
2-succinylbenzoate. Included in this model are low GC
gram positive bacteria and archaea. Also included in the
seed and in the model are enzymes with the com-name of
N-acylamino acid racemase (or the more general term,
racemase / racemase family), which refers to the
enzyme's industrial application as racemases, and not to
its biological function as o-succinylbenzoic acid
synthetase.
Length = 324
Score = 25.6 bits (56), Expect = 2.8
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 1 MTRLRKKN--TCACLSKSLTSYY-ARKLI----FKLLDIEISHFRGFTEIQK-IEFA 49
M K T CL +S+TS AR LI K+++I+ G TE+QK IE
Sbjct: 214 MLDELAKGTITPICLDESITSLDDARNLIELGNVKVINIKPGRLGGLTEVQKAIETC 270
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 25.5 bits (56), Expect = 3.1
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 39 GFTEIQKIEFADHLTIVNG-QNGYGKSSLSEAI 70
G T+ +E+A VN GY ++ ++E+I
Sbjct: 164 GLTKSLAVEYAQSGIRVNAICPGYVRTPMAESI 196
>gnl|CDD|184195 PRK13635, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 25.4 bits (56), Expect = 3.1
Identities = 10/23 (43%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 52 LTIVNGQNGYGKSSLSEAIEWLF 74
+ IV G NG GKS+L++ + L
Sbjct: 36 VAIV-GHNGSGKSTLAKLLNGLL 57
>gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional.
Length = 444
Score = 25.2 bits (55), Expect = 3.6
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 54 IVNGQNGYGKSSLSEAI 70
++NGQ+G GK L++AI
Sbjct: 161 LINGQSGTGKEILAQAI 177
>gnl|CDD|162636 TIGR01978, sufC, FeS assembly ATPase SufC. SufC is part of the
SUF system, shown in E. coli to consist of six proteins
and believed to act in Fe-S cluster formation during
oxidative stress. SufC forms a complex with SufB and
SufD. SufC belongs to the ATP-binding cassette
transporter family (pfam00005) but is no longer thought
to be part of a transporter. The complex is reported as
cytosolic (PubMed:12554644) or associated with the
membrane (PubMed:11943156). The SUF system also
includes a cysteine desulfurase (SufS, enhanced by
SufE) and a probable iron-sulfur cluster assembly
scaffold protein, SufA.
Length = 243
Score = 25.3 bits (56), Expect = 4.0
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 54 IVNGQNGYGKSSLSEAI 70
+ G NG GKS+LS+ I
Sbjct: 30 AIMGPNGSGKSTLSKTI 46
>gnl|CDD|184717 PRK14508, PRK14508, 4-alpha-glucanotransferase; Provisional.
Length = 497
Score = 24.8 bits (55), Expect = 4.8
Identities = 11/15 (73%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 27 FKLLDI-EISHFRGF 40
FKL DI I HFRGF
Sbjct: 288 FKLYDIVRIDHFRGF 302
>gnl|CDD|162633 TIGR01973, NuoG, NADH-quinone oxidoreductase, chain G. This model
represents the G subunit (one of 14: A->N) of the
NADH-quinone oxidoreductase complex I which generally
couples NADH and ubiquinone oxidation/reduction in
bacteria and mammalian mitochondria while translocating
protons, but may act on NADPH and/or plastoquinone in
cyanobacteria and plant chloroplasts. This model
excludes related subunits from formate dehydrogenase
complexes.
Length = 603
Score = 25.0 bits (55), Expect = 4.9
Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 12/41 (29%)
Query: 74 FYGYTQRRKHGDSIKKRS---------IKTPMPMCMAVPRC 105
YG + R KKR+ IKT M C+ RC
Sbjct: 113 MYGSDRSRFRE---KKRTVENKYLGPLIKTEMTRCIHCTRC 150
>gnl|CDD|180381 PRK06067, PRK06067, flagellar accessory protein FlaH; Validated.
Length = 234
Score = 24.9 bits (55), Expect = 5.0
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 52 LTIVNGQNGYGKSSLSEAIEW 72
L ++ G +G GKS LS+ +
Sbjct: 27 LILIEGDHGTGKSVLSQQFVY 47
>gnl|CDD|163179 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD.
This model describes the DndB protein encoded by an
operon associated with a sulfur-containing modification
to DNA. The operon is sporadically distributed in
bacteria, much like some restriction enzyme operons.
DndD is described as a putative ATPase. The small
number of examples known so far include species from
among the Firmicutes, Actinomycetes, Proteobacteria,
and Cyanobacteria.
Length = 650
Score = 24.6 bits (54), Expect = 5.0
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 25 LIFKLLDIEISHFRGFTEIQKIEFA----DHLTIVNGQNGYGKSSLSEAIEWLFYGY 77
+I L +E +F + Q + + + ++ G NG GK++L +AI+ YG
Sbjct: 1 MIILQLTLE--NFGPYRGRQTFDLSPSSPKPIILIGGLNGAGKTTLLDAIQLALYGK 55
>gnl|CDD|183114 PRK11388, PRK11388, DNA-binding transcriptional regulator DhaR;
Provisional.
Length = 638
Score = 24.6 bits (54), Expect = 5.3
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 54 IVNGQNGYGKSSLSEAI 70
++ G+ G GK+ L++AI
Sbjct: 352 LLCGEEGVGKALLAQAI 368
>gnl|CDD|183324 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
Reviewed.
Length = 556
Score = 24.7 bits (55), Expect = 5.6
Identities = 21/66 (31%), Positives = 25/66 (37%), Gaps = 25/66 (37%)
Query: 1 MTRLRKKNTCACLSKSLTSYYARKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNG 60
M R+ K +K I K DI +S F G KI V G NG
Sbjct: 9 MNRVSK------------VVPPKKQILK--DISLSFFPG----AKIG-------VLGLNG 43
Query: 61 YGKSSL 66
GKS+L
Sbjct: 44 AGKSTL 49
>gnl|CDD|184202 PRK13642, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 24.7 bits (53), Expect = 5.9
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 57 GQNGYGKSSLSEAIEWLF 74
GQNG GKS+ + I+ LF
Sbjct: 40 GQNGSGKSTTARLIDGLF 57
>gnl|CDD|130996 TIGR01941, nqrF, NADH:ubiquinone oxidoreductase,
Na(+)-translocating, F subunit. This model represents
the NqrF subunit of the six-protein, Na(+)-pumping
NADH-quinone reductase of a number of marine and
pathogenic Gram-negative bacteria. This oxidoreductase
complex functions primarily as a sodium ion pump.
Length = 405
Score = 24.4 bits (53), Expect = 6.2
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 6 KKNTCACLSKSLTSYYARKLIFKLLDIEISHFR--GFTEIQ----KIEFAD 50
KK C +S + + ++L+ KL D E F+ G+ +I+ +++AD
Sbjct: 128 KKWECEVISNDNVATFIKELVLKLPDGESVPFKAGGYIQIEAPPHVVKYAD 178
>gnl|CDD|184128 PRK13541, PRK13541, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 195
Score = 24.4 bits (53), Expect = 6.6
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 52 LTIVNGQNGYGKSSLSEAI 70
+T + G NG GKSSL I
Sbjct: 28 ITYIKGANGCGKSSLLRMI 46
>gnl|CDD|182970 PRK11111, PRK11111, hypothetical protein; Provisional.
Length = 214
Score = 24.1 bits (53), Expect = 7.4
Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 6 KKNTCACLSKS---LTSYYARKLIFKLLDIEISHFR 38
K N A LS + L S + I L I I FR
Sbjct: 44 KTNLTANLSVAIILLISLFLGDFILNLFGISIDSFR 79
>gnl|CDD|150482 pfam09818, ABC_ATPase, Predicted ATPase of the ABC class. Members
of this family include various bacterial predicted ABC
class ATPases.
Length = 447
Score = 24.1 bits (53), Expect = 8.6
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 52 LTIVNGQNGYGKSSLSEAIE 71
+T++ G +GKS+L EA+E
Sbjct: 245 ITLIVGGGYHGKSTLLEALE 264
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
0.324 0.136 0.413
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,729,884
Number of extensions: 92060
Number of successful extensions: 300
Number of sequences better than 10.0: 1
Number of HSP's gapped: 300
Number of HSP's successfully gapped: 47
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.0 bits)