RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780496|ref|YP_003064909.1| integration host factor
subunit alpha [Candidatus Liberibacter asiaticus str. psy62]
(114 letters)
>gnl|CDD|178961 PRK00285, ihfA, integration host factor subunit alpha; Reviewed.
Length = 99
Score = 112 bits (282), Expect = 2e-26
Identities = 35/99 (35%), Positives = 60/99 (60%)
Query: 3 KTITRSDLVKSISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSR 62
T+T++DL +++ ++ GLS++++ V F EI D+ GE +K+S F F ++ K R
Sbjct: 1 MTLTKADLAEALFEKVGLSKREAKELVELFFEEIRDALENGEQVKLSGFGNFQLRDKNQR 60
Query: 63 VGRNLQTNQEVKIDPRRVVVFKASSILKKRIMDDMRGRK 101
GRN +T +E+ I RRVV F+ S LK R+ + ++
Sbjct: 61 PGRNPKTGEEIPISARRVVTFRPSQKLKSRVENAAPKKQ 99
>gnl|CDD|130060 TIGR00987, himA, integration host factor, alpha subunit. This
protein forms a site-specific DNA-binding heterodimer
with the integration host factor beta subunit. It is
closely related to the DNA-binding protein HU.
Length = 96
Score = 84.2 bits (208), Expect = 6e-18
Identities = 31/90 (34%), Positives = 52/90 (57%)
Query: 4 TITRSDLVKSISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRV 63
+T++++ + + E GLS++++ V F EI + GE +K+S F F ++ K R
Sbjct: 1 ALTKAEMSEYLFDELGLSKREAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRP 60
Query: 64 GRNLQTNQEVKIDPRRVVVFKASSILKKRI 93
GRN +T +E+ I RRVV F+ LK R+
Sbjct: 61 GRNPKTGEEIPITARRVVTFRPGQKLKSRV 90
>gnl|CDD|128689 smart00411, BHL, bacterial (prokaryotic) histone like domain.
Length = 90
Score = 81.8 bits (203), Expect = 4e-17
Identities = 29/89 (32%), Positives = 56/89 (62%)
Query: 5 ITRSDLVKSISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRVG 64
+T+S+L+ +I+++ GLS+KD+ V I ++ +GE +++ F TF V+++ +R G
Sbjct: 1 MTKSELIDAIAEKAGLSKKDAKAAVDAFLEIITEALKKGEKVELRGFGTFEVRERKAREG 60
Query: 65 RNLQTNQEVKIDPRRVVVFKASSILKKRI 93
RN +T +E++I ++V FK LK +
Sbjct: 61 RNPKTGEEIEIPAKKVPKFKPGKALKDAV 89
>gnl|CDD|178925 PRK00199, ihfB, integration host factor subunit beta; Reviewed.
Length = 94
Score = 58.7 bits (143), Expect = 3e-10
Identities = 28/89 (31%), Positives = 52/89 (58%), Gaps = 1/89 (1%)
Query: 6 TRSDLVKSISKEFG-LSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRVG 64
T+S+L++ ++ LS KD V + E+ D+ RG+ I+I F +F + + RVG
Sbjct: 2 TKSELIERLAARNPHLSAKDVENAVKEILEEMSDALARGDRIEIRGFGSFSLHYRPPRVG 61
Query: 65 RNLQTNQEVKIDPRRVVVFKASSILKKRI 93
RN +T ++V+++ + V FK L++R+
Sbjct: 62 RNPKTGEKVELEEKYVPHFKPGKELRERV 90
>gnl|CDD|130061 TIGR00988, hip, integration host factor, beta subunit. This
protein forms a site-specific DNA-binding heterodimer
with the homologous integration host factor alpha
subunit. It is closely related to the DNA-binding
protein HU.
Length = 94
Score = 57.6 bits (139), Expect = 8e-10
Identities = 26/90 (28%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 5 ITRSDLVKSISKEFG-LSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRV 63
+T+S+L++ I+ + L KD V T+ + + +G+ I+I F +F + + R
Sbjct: 1 MTKSELIERIATQQSHLPAKDVEDAVKTMLEHMASALAQGDRIEIRGFGSFSLHYRAPRT 60
Query: 64 GRNLQTNQEVKIDPRRVVVFKASSILKKRI 93
GRN +T V++D + V FK L+ R
Sbjct: 61 GRNPKTGDSVELDGKYVPHFKPGKELRDRA 90
>gnl|CDD|170612 PRK10664, PRK10664, transcriptional regulator HU subunit beta;
Provisional.
Length = 90
Score = 47.7 bits (113), Expect = 6e-07
Identities = 25/89 (28%), Positives = 47/89 (52%)
Query: 5 ITRSDLVKSISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRVG 64
+ +S L+ I+ +S+ + R + + + +S G+ + + F TF VK++ +R G
Sbjct: 1 MNKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG 60
Query: 65 RNLQTNQEVKIDPRRVVVFKASSILKKRI 93
RN QT +E+ I +V F+A LK +
Sbjct: 61 RNPQTGKEITIAAAKVPSFRAGKALKDAV 89
>gnl|CDD|138142 PRK10753, PRK10753, transcriptional regulator HU subunit alpha;
Provisional.
Length = 90
Score = 45.2 bits (106), Expect = 4e-06
Identities = 25/89 (28%), Positives = 45/89 (50%)
Query: 5 ITRSDLVKSISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKGSRVG 64
+ ++ L+ I+ + LS+ + + + I +S G+A+++ F TF V + R G
Sbjct: 1 MNKTQLIDVIADKAELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTG 60
Query: 65 RNLQTNQEVKIDPRRVVVFKASSILKKRI 93
RN QT +E+KI V F + LK +
Sbjct: 61 RNPQTGKEIKIAAANVPAFVSGKALKDAV 89
>gnl|CDD|151379 pfam10932, DUF2783, Protein of unknown function (DUF2783). This
is a bacterial family of uncharacterized protein.
Length = 60
Score = 26.1 bits (58), Expect = 2.1
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 19 GLSRKDS----TRFVTTLFNEICDSAVRGEAIKI 48
GLS + S R + L N I D AV EAI +
Sbjct: 23 GLSDEQSAALNARLILLLANHIGDRAVLREAIAL 56
>gnl|CDD|148935 pfam07591, DUF1557, Protein of unknown function (DUF1557). A
cluster of homologous proteins identified in Leptospira
interrogans. One member has been predicted to be a
phenazine biosynthesis family protein.
Length = 130
Score = 25.2 bits (55), Expect = 4.2
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 20 LSRKDSTRFVTTLFNEICDSAVRGEAIKISSFATFHVKQKG 60
L + + V + EI D ++ +K++ F T+ V G
Sbjct: 84 LDSSGNVQTVENIKLEITDKPLKVYNLKVADFHTYFVGTNG 124
>gnl|CDD|162848 TIGR02414, pepN_proteo, aminopeptidase N, Escherichia coli type.
The M1 family of zinc metallopeptidases contains a
number of distinct, well-separated clades of proteins
with aminopeptidase activity. Several are designated
aminopeptidase N, EC 3.4.11.2, after the Escherichia
coli enzyme, suggesting a similar activity profile. This
family consists of all aminopeptidases closely related
to E. coli PepN and presumed to have similar (not
identical) function. Nearly all are found in
Proteobacteria, but members are found also in
Cyanobacteria, plants, and apicomplexan parasites. This
family differs greatly in sequence from the family of
aminopeptidases typified by Streptomyces lividans PepN
(TIGR02412), from the membrane bound aminopeptidase N
family in animals, etc.
Length = 863
Score = 25.0 bits (55), Expect = 5.0
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 41 VRGEA-IKISSFATFHVKQKGSRVGRNLQT 69
VR E+ ++I++F T V +KG+ V R L T
Sbjct: 356 VRPESYVEINNFYTATVYEKGAEVIRMLHT 385
>gnl|CDD|180637 PRK06599, PRK06599, DNA topoisomerase I; Validated.
Length = 675
Score = 24.4 bits (54), Expect = 6.3
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 14 ISKEFGLSRKDSTRFVTTLFNEICDSAVRGEAIK 47
I++ ++ +FNEI AV+ EAI+
Sbjct: 94 IAEVLKEAKLKDKNVKRVVFNEITKKAVQ-EAIE 126
>gnl|CDD|163565 TIGR03853, matur_matur, probable metal-binding protein. This
protein family was identified by searching with a
phylogenetic profile based on an anaerobic
sulfatase-maturase enzyme, which contains multiple
4Fe-4S clusters. The linkages by phylogenetic profiling
and by iron-sulfur cluster-related motifs together
suggest this protein may be an accessory protein to
certain maturases in sulfatase/maturase systems.
Length = 77
Score = 24.1 bits (53), Expect = 7.6
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 3 KTITRSDLVKSISKEFGLSRKDSTRFVT 30
+ TR L +I ++FG + RF T
Sbjct: 16 EPYTRESLKAAIEQKFG----EDARFHT 39
>gnl|CDD|165170 PHA02820, PHA02820, phospholipase-D-like protein; Provisional.
Length = 424
Score = 24.2 bits (52), Expect = 7.8
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 18 FGLSRKDSTRFVTTLFNEICDSAVRGEAIKI 48
+ LS + T F T + NEI RG ++I
Sbjct: 49 WSLSDEVGTNFGTMILNEIIQLPKRGVRVRI 79
>gnl|CDD|173427 PTZ00137, PTZ00137, 2-Cys peroxiredoxin; Provisional.
Length = 261
Score = 24.1 bits (52), Expect = 8.1
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 8 SDLVKSISKEFGLSRKD 24
SD+ + +SK FGL R +
Sbjct: 168 SDISREVSKSFGLLRDE 184
>gnl|CDD|181196 PRK08010, PRK08010, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 441
Score = 23.8 bits (51), Expect = 9.8
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 61 SRVGRNLQTNQEVKIDPRRVVVFKASSILKKRIMDDMRG 99
SRVG + +E D + VV ++I + R+M+D RG
Sbjct: 339 SRVGMTEEQARESGADIQ-VVTLPVAAIPRARVMNDTRG 376
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
0.318 0.131 0.355
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,652,133
Number of extensions: 87096
Number of successful extensions: 189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 25
Length of query: 114
Length of database: 5,994,473
Length adjustment: 79
Effective length of query: 35
Effective length of database: 4,287,441
Effective search space: 150060435
Effective search space used: 150060435
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 (21.7 bits)
S2: 50 (22.9 bits)