RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781203|ref|YP_003065616.1| hypothetical protein
CLIBASIA_05550 [Candidatus Liberibacter asiaticus str. psy62]
(478 letters)
>gnl|CDD|38804 KOG3598, KOG3598, KOG3598, Thyroid hormone receptor-associated
protein complex, subunit TRAP230 [Transcription].
Length = 2220
Score = 36.6 bits (84), Expect = 0.013
Identities = 33/185 (17%), Positives = 55/185 (29%), Gaps = 34/185 (18%)
Query: 262 KHGVKSSSPGLHTSFDAYEAHTDTLAHGVDSLVRGEYPHFDQEKLQTIADNTLEDPHFKP 321
K+G++ S+ + +D +E G L + F ++ N E
Sbjct: 1710 KNGLQVSTKQKKSPWDLFE--------GTKHLAPLSWKWFGTVRVDRRVKNVEEQLRLLL 1761
Query: 322 H----LPEP-----EPLPQYKEHSDRQKPSEPLAEHPHPKRKEV-----------ERELS 361
+ LP P PLP E + K +E E + + E +
Sbjct: 1762 YHTHVLPFPRDYYLAPLPLPPEDEEEAKKAEEEKEAAEKEEESKNAEDEKNKNTAENKKD 1821
Query: 362 EIEGAKKESSARKFFDEG------SPDHSPFKGERNQKLDPMRGADFTDAPHAKFDATTF 415
EG K +S ++ E SP + A +AP T
Sbjct: 1822 TKEGEKGKSKDKEKEGEKEKCKRASPKDDVTSEKNEHHPRASDAAAALNAPETNKGMDTQ 1881
Query: 416 TESLP 420
+ L
Sbjct: 1882 NQKLA 1886
>gnl|CDD|34463 COG4854, COG4854, Predicted membrane protein [Function unknown].
Length = 126
Score = 34.9 bits (80), Expect = 0.054
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 93 GAALAGKLLSFIPTPLTRLAGLALQSAPLAA----GALYAYLSHKA 134
AAL G +L + PL A AL+ A A A Y Y S +A
Sbjct: 79 SAALGGAVLLALKNPLHTNAAFALEFAVCAVIVLYLAFYMYYSRRA 124
>gnl|CDD|32452 COG2271, UhpC, Sugar phosphate permease [Carbohydrate transport and
metabolism].
Length = 448
Score = 32.9 bits (75), Expect = 0.18
Identities = 18/70 (25%), Positives = 22/70 (31%), Gaps = 4/70 (5%)
Query: 74 VGTGAHLVEGLTSLAPYIAGAALAGKLLSFIPTPLTRLAGLALQSAPLAAGALYAYLSHK 133
GT G L Y+ GAALAG L +I G + S L
Sbjct: 380 AGTAT----GFVGLFAYLIGAALAGLPLGYIADTWGWDGGFIVLSIAALLAILLLLPVWN 435
Query: 134 AESSIHHQIE 143
AE +
Sbjct: 436 AEERKIRDEK 445
>gnl|CDD|31074 COG0730, COG0730, Predicted permeases [General function prediction
only].
Length = 258
Score = 30.4 bits (68), Expect = 1.2
Identities = 21/94 (22%), Positives = 26/94 (27%), Gaps = 4/94 (4%)
Query: 77 GAHLVEGLTSLAPYIAGAALAGKLLSFIPTPLTRLAGLALQSAPLAAGALYAYLSHKAES 136
L L + GA L L +P L +L L L ALY L +
Sbjct: 70 NVDWKLALILLLGALIGAFLGALLALLLPAELLKLLFGLL----LLLLALYMLLGPRLAK 125
Query: 137 SIHHQIEGVDKETADALAWREAIVHTSALLAPGA 170
+ A AL S L G
Sbjct: 126 AEDRAARLRPLLFALALLIGFLAGFLSGLFGVGG 159
>gnl|CDD|37262 KOG2051, KOG2051, KOG2051, Nonsense-mediated mRNA decay 2 protein
[RNA processing and modification].
Length = 1128
Score = 29.6 bits (66), Expect = 2.1
Identities = 29/154 (18%), Positives = 58/154 (37%), Gaps = 16/154 (10%)
Query: 327 EPLPQYKEHSDRQKPSEPLAEHPHPKRKEVERELSEIEGAKKESSARKFFDEGSPDHSPF 386
E +P+ +E SD P E ++ +E S+ + R F++ D F
Sbjct: 286 ELMPELEEESDEADPGEEASQMGKNGSLSIEDLWSDED-------TRAFYENL-IDLRDF 337
Query: 387 KGERNQKLDPMRGAD---FTDAPHAKFDA--TTFTESLPH-VDEQTMHRFSELKERHPVE 440
N+ + + + ++A D TT S + ++ +LKE +
Sbjct: 338 VPATNEGFNKSKEVEKESNSEAAMVWDDREQTTEVSSPSNFMEGSIAEMKEDLKESKGED 397
Query: 441 AREVL--EGLQEKLQGTKEIKTKSLIKEAINCFL 472
+E L ++ L ++ S + ++CFL
Sbjct: 398 EKEELGKNKQEQDLLESEGDLNTSQVVSNVDCFL 431
>gnl|CDD|31004 COG0659, SUL1, Sulfate permease and related transporters (MFS
superfamily) [Inorganic ion transport and metabolism].
Length = 554
Score = 29.1 bits (65), Expect = 2.5
Identities = 35/160 (21%), Positives = 57/160 (35%), Gaps = 18/160 (11%)
Query: 90 YIAGAALAGKLLSFIPTPLTR--LAGLAL-----QSAPLAAGALYAYLSHKAESSIHHQI 142
+ G G+L+ FIP P+ AG+A+ Q L A S++ +
Sbjct: 112 ILLGLLRLGRLIRFIPRPVLIGFTAGIAILIILTQLPVLLGLASKVSGFWAKVSALFTVL 171
Query: 143 EGVDKETADALAWREAIVHTSALLAPGAIASQSIAKTVASGAVLNVPFGMVERGWSSKVL 202
++ T AI+ L P I S IA + + V P + G L
Sbjct: 172 LTINLATLLLGLLTLAILLFLPRLTP-RIPSPLIALVLGTLIVWIFPLDSLRYGEIPGSL 230
Query: 203 EDHGYPDMAQHYRIFD-----MESLITDGLIGAFFGGMHS 237
P H+R+ + + +L+ L A G + S
Sbjct: 231 -----PSGLPHFRLPNVSLSLLLALLPYALALALLGLLES 265
>gnl|CDD|34016 COG4294, Uve, UV damage repair endonuclease [DNA replication,
recombination, and repair].
Length = 347
Score = 28.8 bits (64), Expect = 3.3
Identities = 32/152 (21%), Positives = 54/152 (35%), Gaps = 18/152 (11%)
Query: 199 SKVLEDHGYPDMAQHYRIFDMESLITDGLIGAFFGGMHSKQVQNMS--LRLVNDLKEGIT 256
+ + D D+A HYRI D L + GG H + + + ++ + L + +
Sbjct: 146 REEVVDSSIRDLAYHYRILDGMGLAERSVWNLHLGGTHGGKKERLEQFIKNIQRLPDSVK 205
Query: 257 ERLPYKHGVKSSSP--------GLHTSFDAYEAHTDTLAHGVDSLVRGEYPHFDQEKLQT 308
RL ++ KS S L+ ++AH + G+D +L
Sbjct: 206 SRLTLENDDKSYSTEELLPLCEKLNIPL-VFDAHHHNVHPGLDR-----EDSPSLMELIP 259
Query: 309 IADNTLEDPHFKP--HLPEPEPLPQYKEHSDR 338
T P + HL P + HSD
Sbjct: 260 RIRETWTRPGLQQKVHLSSPASGTADRRHSDY 291
>gnl|CDD|39109 KOG3906, KOG3906, KOG3906, Tryptophan 2,3-dioxygenase [Amino acid
transport and metabolism].
Length = 399
Score = 28.9 bits (64), Expect = 3.3
Identities = 12/70 (17%), Positives = 24/70 (34%), Gaps = 2/70 (2%)
Query: 331 QYKEHSDRQKPSEPLAEHPHPKRKEVERELSEIEGAKKESSARKFFDEGSPDHSPFKGER 390
+Y++ +R +E ++L+E K + FD + G R
Sbjct: 220 KYEKSVNRYLEDLAKQAADPSNTEEKAKQLAEYH--KTAEVFQSIFDPRQHEQLIRNGNR 277
Query: 391 NQKLDPMRGA 400
++GA
Sbjct: 278 RLSHRALQGA 287
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 28.5 bits (64), Expect = 4.7
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 255 ITERLPYKHGVKSSSPGLHTSF 276
+ +RL G+ SS+PGLH SF
Sbjct: 43 LIDRLRKNLGLTSSNPGLHMSF 64
>gnl|CDD|37349 KOG2138, KOG2138, KOG2138, Predicted RNA binding protein, contains
G-patch domain [RNA processing and modification].
Length = 883
Score = 28.1 bits (62), Expect = 5.1
Identities = 16/77 (20%), Positives = 33/77 (42%)
Query: 317 PHFKPHLPEPEPLPQYKEHSDRQKPSEPLAEHPHPKRKEVERELSEIEGAKKESSARKFF 376
P FKP+ E +P ++H ++ + E K + + + +G +K +K
Sbjct: 788 PVFKPNASETLEVPLKEKHKKKKDKHKKKKEKRRKSEKSKKHKKHKKKGKQKNRKPKKSS 847
Query: 377 DEGSPDHSPFKGERNQK 393
S D S + ++ +K
Sbjct: 848 SSESSDSSDKQSDKEKK 864
>gnl|CDD|37884 KOG2673, KOG2673, KOG2673, Uncharacterized conserved protein,
contains PSP domain [Function unknown].
Length = 485
Score = 28.1 bits (62), Expect = 6.0
Identities = 13/76 (17%), Positives = 19/76 (25%)
Query: 299 PHFDQEKLQTIADNTLEDPHFKPHLPEPEPLPQYKEHSDRQKPSEPLAEHPHPKRKEVER 358
E + +N + L P P K +++ EP K E
Sbjct: 313 SDSGTEVDDPLTENEVASEPRPNSLDLPVPEDPGKTSDGKERLEEPELPDIFTKDVEAGH 372
Query: 359 ELSEIEGAKKESSARK 374
E RK
Sbjct: 373 ASDEDSEVTSLCQKRK 388
>gnl|CDD|38255 KOG3045, KOG3045, KOG3045, Predicted RNA methylase involved in rRNA
processing [RNA processing and modification].
Length = 325
Score = 28.1 bits (62), Expect = 6.0
Identities = 25/143 (17%), Positives = 46/143 (32%), Gaps = 15/143 (10%)
Query: 330 PQYKEHSDRQKPSEPLAEHPHPKRKEVERELSEIEGAKKESSARKFFDEGSPDHSPFKGE 389
P K S + K + KRK+ ER+L + A+ + + + SP +
Sbjct: 23 PSEKPTSSKTKEEKK-----KKKRKKGERKLKAKKAAELKENVEEPPLGSEAKSSPKENS 77
Query: 390 RNQKLDPMRGADFTDAPHAKFDATTFTESLPHVDEQTMHRFSELKERHPVEAREVLEGLQ 449
+ ++ + + A A T + + R + R+ L
Sbjct: 78 KKKRRNETKKKKEKPPEKAGAAAETEKTEATDLQAKMKKRLDGGRFRY----------LN 127
Query: 450 EKLQGTKEIKTKSLIKEAINCFL 472
E+L + L KE F
Sbjct: 128 EQLYTGTSSEAFDLFKEDPTAFD 150
>gnl|CDD|146672 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 27.8 bits (62), Expect = 7.5
Identities = 20/64 (31%), Positives = 29/64 (45%)
Query: 80 LVEGLTSLAPYIAGAALAGKLLSFIPTPLTRLAGLALQSAPLAAGALYAYLSHKAESSIH 139
++ GL +A IA L G L + + L +A LAL LA G L L +S
Sbjct: 12 IILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLLLKAPVQSVRP 71
Query: 140 HQIE 143
++E
Sbjct: 72 QKLE 75
>gnl|CDD|111851 pfam03007, UPF0089, Uncharacterized protein family (UPF0089). This
family of uncharacterized proteins is greatly expanded
in Mycobacterium tuberculosis. The most conserved region
of the proteins contains conserved histidine and
aspartate residues suggesting a possible metal binding
site suggestive of a protease activity (Bateman A. pers.
obs.).
Length = 263
Score = 27.7 bits (62), Expect = 7.8
Identities = 28/104 (26%), Positives = 37/104 (35%), Gaps = 21/104 (20%)
Query: 38 VINMPARSLDKL-VAPFREETHDQPNYYRGSRTDPHSVGTGAHLVEGLTSLAPYIAGAA- 95
+N+ AR LD P R P RTD + G GL +A +AG
Sbjct: 145 GLNLLARLLDLDPDPPPRPTPPQTP--PGDPRTDLRASGILVLPAAGLGRVAGGVAGVVS 202
Query: 96 LAGKLL-----------------SFIPTPLTRLAGLALQSAPLA 122
AG+LL + P++R A QS PL
Sbjct: 203 TAGRLLERALIARSVALPFAAPHTPFNAPVSRARRFAAQSLPLD 246
>gnl|CDD|145649 pfam02610, Arabinose_Isome, L-arabinose isomerase. This is a
family of L-arabinose isomerases, AraA, EC:5.3.1.4.
These enzymes catalyse the reaction: L-arabinose <=>
L-ribulose. This reaction is the first step in the
pathway of L-arabinose utilisation as a carbon source
after entering the cell L-arabinose is converted into
L-ribulose by the L-arabinose isomerases enzyme.
Length = 359
Score = 27.6 bits (62), Expect = 8.2
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 2 YFNAVSDEDIRDNIKEWAQRPRVSPDIK 29
NAVSDED+ + E+ ++P++
Sbjct: 217 AVNAVSDEDVDALVAEYEDLYDLAPELN 244
>gnl|CDD|36921 KOG1709, KOG1709, KOG1709, Guanidinoacetate methyltransferase and
related proteins [Amino acid transport and metabolism].
Length = 271
Score = 27.6 bits (61), Expect = 8.8
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 17/87 (19%)
Query: 106 TPLTRLAGLALQSAPLAAGALYAYLSHKAESSIHHQIEGVDKETADALAWREAIVHTSAL 165
L L +A A L YLS ++ + +GV + W I+H A
Sbjct: 43 LLLFALGRNESPNADGNAPYLQDYLSTAEDTLLDSLGKGV------MMRWETPIMHALA- 95
Query: 166 LAPGAIASQSIAKTVASGAVLNVPFGM 192
AI+++ G VLNV FGM
Sbjct: 96 ---EAISTKG-------GRVLNVGFGM 112
>gnl|CDD|119358 cd02879, GH18_plant_chitinase_class_V, The class V plant chitinases
have a glycosyl hydrolase family 18 (GH18) domain, but
lack the chitin-binding domain present in other GH18
enzymes. The GH18 domain of the class V chitinases has
endochitinase activity in some cases and no catalytic
activity in others. Included in this family is a lectin
found in black locust (Robinia pseudoacacia) bark, which
binds chitin but lacks chitinase activity. Also
included is a chitinase-related receptor-like kinase
(CHRK1) from tobacco (Nicotiana tabacum), with an
N-terminal GH18 domain and a C-terminal kinase domain,
which is thought to be part of a plant signaling
pathway. The GH18 domain of CHRK1 is expressed
extracellularly where it binds chitin but lacks
chitinase activity..
Length = 299
Score = 27.3 bits (61), Expect = 9.2
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 408 AKFDATTFTESLPHVDEQTMHRFSE-LKERHP 438
A D +T+ + DE F+E +K ++P
Sbjct: 34 ADLDPSTYEVVISPSDESEFSTFTETVKRKNP 65
>gnl|CDD|36175 KOG0957, KOG0957, KOG0957, PHD finger protein [General function
prediction only].
Length = 707
Score = 27.4 bits (60), Expect = 9.7
Identities = 10/40 (25%), Positives = 14/40 (35%)
Query: 319 FKPHLPEPEPLPQYKEHSDRQKPSEPLAEHPHPKRKEVER 358
F EP P P+Y E + K + + P E
Sbjct: 631 FINVPKEPAPAPEYIEDTKSPKRPKLQSPCKTPINVPAEA 670
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
0.314 0.132 0.388
Gapped
Lambda K H
0.267 0.0479 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,840,734
Number of extensions: 310322
Number of successful extensions: 725
Number of sequences better than 10.0: 1
Number of HSP's gapped: 725
Number of HSP's successfully gapped: 31
Length of query: 478
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 381
Effective length of database: 4,167,664
Effective search space: 1587879984
Effective search space used: 1587879984
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: 42 (22.0 bits)
S2: 59 (27.1 bits)