RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781202|ref|YP_003065615.1| hypothetical protein
CLIBASIA_05545 [Candidatus Liberibacter asiaticus str. psy62]
(864 letters)
>gnl|CDD|35153 COG5594, COG5594, Uncharacterized integral membrane protein
[Function unknown].
Length = 827
Score = 31.4 bits (71), Expect = 1.2
Identities = 22/128 (17%), Positives = 47/128 (36%), Gaps = 3/128 (2%)
Query: 487 KRISSHALIVYNQIGRMTDTYASLKDLKADPRLDPSIKAFFKQLDDTDFTVIKRAKAMSS 546
R + + ++ + L ++ R D +K F +L + + + +
Sbjct: 190 LRSPLYQQSLLTLQNNLSSRTVLISGLPSELRSDEELKELFDKLKVGEIDSDVLCRDLGT 249
Query: 547 PDGYLYARTPSTIKNLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQLADLE 606
LY +K L+ A L ++ K H K K S L+P +++E + +
Sbjct: 250 LQ-ELYKERDKILKKLEKALNELLNKLLKK--SHLKTNKKSGKLTPSRKKEFEILPEYVP 306
Query: 607 RKEINILK 614
K+ +
Sbjct: 307 DKKRPKHR 314
>gnl|CDD|146932 pfam04536, DUF477, Domain of unknown function (DUF477). The
function of this presumed domain is unknown. It is found
in both eukarya and eubacteria.
Length = 124
Score = 29.9 bits (68), Expect = 3.4
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 588 KTLSPEQRQELQQQLADLERK---EINIL 613
LS +R L+Q LA LE+K EI ++
Sbjct: 1 GLLSAAERARLEQALAALEQKTGGEIVVV 29
>gnl|CDD|31701 COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase
type [General function prediction only].
Length = 271
Score = 29.5 bits (66), Expect = 4.2
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 586 NSKTLSPEQRQELQQQLADLERK 608
+ TLS +R L+QQLADLE+K
Sbjct: 39 LTGTLSAAERGALEQQLADLEQK 61
>gnl|CDD|40025 KOG4828, KOG4828, KOG4828, Uncharacterized conserved protein
[Function unknown].
Length = 125
Score = 29.2 bits (65), Expect = 5.4
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 2/53 (3%)
Query: 490 SSHALIVYNQIGRMTDTYASLKDLKADPRLDP--SIKAFFKQLDDTDFTVIKR 540
+ H L+V Q+G+M Y D+K +P + LD+ + +
Sbjct: 32 AKHILLVITQLGKMGTIYNVHFDVKKSEVDNPEFHVSVPIGMLDEPETRSAAQ 84
>gnl|CDD|37602 KOG2391, KOG2391, KOG2391, Vacuolar sorting protein/ubiquitin
receptor VPS23 [Posttranslational modification, protein
turnover, chaperones, Intracellular trafficking,
secretion, and vesicular transport].
Length = 365
Score = 28.8 bits (64), Expect = 6.1
Identities = 25/101 (24%), Positives = 45/101 (44%), Gaps = 12/101 (11%)
Query: 540 RAKAMSSPDGYLYARTPSTIKNLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQ 599
RA +S+ L R ++ L+ A+ L R +++ ++KL ++ L+
Sbjct: 208 RASVISAVREKLRRRREEEMERLQ-AEQESLKRTEEELNIGKQKLV-------AMKETLE 259
Query: 600 QQLADLERKEINILKDKVS---NKMHALVLDNVQTSVRGAM 637
QQL L+ K I+ILK KV K L ++ ++
Sbjct: 260 QQLQSLQ-KNIDILKSKVREALEKAENLEALDIDEAIECTA 299
>gnl|CDD|39983 KOG4786, KOG4786, KOG4786, Ubinuclein, nuclear protein interacting
with cellular and viral transcription factors
[Transcription, Signal transduction mechanisms].
Length = 1136
Score = 28.7 bits (63), Expect = 6.8
Identities = 11/50 (22%), Positives = 20/50 (40%)
Query: 224 SRYKDIDGTPLSRSEIASFVGEVFAERVRSTSFKDPSIPSSEVGVKREFE 273
S K +S +I E+ ++ S+S P+ P++ K E
Sbjct: 234 SAQKGSTTVTMSAKKICKQQEEIAKQKPSSSSVTPPAAPTASTPKKEEIG 283
>gnl|CDD|145855 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA
binding fragment. Topoisomerase I promotes the
relaxation of DNA superhelical tension by introducing a
transient single-stranded break in duplex DNA and are
vital for the processes of replication, transcription,
and recombination. This family may be more than one
structural domain.
Length = 215
Score = 28.7 bits (65), Expect = 6.9
Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 559 IKNLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQLADLERK----EINILK 614
IK L+ D + Y + + K +S E+++ L+++ LE ++ K
Sbjct: 80 IKELEKCDFTPIY------EYFEAEKEKKKAMSKEEKKALKEEKDKLEEPYGYCLVDGRK 133
Query: 615 DKVSN 619
+KV N
Sbjct: 134 EKVGN 138
>gnl|CDD|113842 pfam05087, Rota_VP2, Rotavirus VP2 protein. Rotavirus particles
consist of three concentric proteinaceous capsid layers.
The innermost capsid (core) is made of VP2. The genomic
RNA and the two minor proteins VP1 and VP3 are
encapsidated within this layer. The N-terminus of
rotavirus VP2 is necessary for the encapsidation of VP1
and VP3.
Length = 887
Score = 28.8 bits (64), Expect = 7.7
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 577 IAYHRKKLKNSKTLSPEQRQELQQQLADLERKEINILKDKVSNKMHALVLDNVQTSVR 634
+AY ++ +N++ E+ ++ + Q E KEI LK+KV +K + D+ V+
Sbjct: 1 MAYRNRRRRNTQQKDAEKEKQTENQ----EEKEIKELKEKVKDKKQVVTTDDSPKDVK 54
>gnl|CDD|37339 KOG2128, KOG2128, KOG2128, Ras GTPase-activating protein family -
IQGAP [Signal transduction mechanisms].
Length = 1401
Score = 28.4 bits (63), Expect = 7.8
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 565 ADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQLA 603
D+R+L R ++ L+ + E+ + L ++L
Sbjct: 1225 NDIRNLRRRREERRAELDILQQTLRALCEKNEFLSEKLI 1263
>gnl|CDD|143433 cd07115, ALDH_HMSADH_HapE, Pseudomonas fluorescens 4-hydroxymuconic
semialdehyde dehydrogenase-like. 4-hydroxymuconic
semialdehyde dehydrogenase (HapE, EC=1.2.1.61) of
Pseudomonas fluorescens ACB involved in
4-hydroxyacetophenone degradation, and putative
hydroxycaproate semialdehyde dehydrogenase (ChnE) of
Brachymonas petroleovorans involved in cyclohexane
metabolism, and other similar sequences, are present in
this CD.
Length = 453
Score = 28.6 bits (64), Expect = 8.6
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 234 LSRSEIASFVGEVFAERVRSTSFKDPSIPSSEVG---VKREFERVFHFKD 280
L I E F RS DP P +++G + +F+RV + D
Sbjct: 267 LVHESIYDEFLERFTSLARSLRPGDPLDPKTQMGPLVSQAQFDRVLDYVD 316
>gnl|CDD|111752 pfam02898, NO_synthase, Nitric oxide synthase, oxygenase domain.
Length = 367
Score = 28.2 bits (63), Expect = 9.4
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 152 DEMKGKKTQNEQASRLVKQYFETQRELHSQAHEAGL 187
D + K+ + A + QY+ + + S+AH A L
Sbjct: 1 DTPRPKEELLQHAKDFINQYYSSIKRSKSEAHLARL 36
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
0.317 0.132 0.372
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 9,976,980
Number of extensions: 529467
Number of successful extensions: 1635
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1634
Number of HSP's successfully gapped: 31
Length of query: 864
Length of database: 6,263,737
Length adjustment: 102
Effective length of query: 762
Effective length of database: 4,059,619
Effective search space: 3093429678
Effective search space used: 3093429678
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: 62 (27.7 bits)