RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780823|ref|YP_003065236.1| double-strand break repair
protein AddB [Candidatus Liberibacter asiaticus str. psy62]
(1040 letters)
>gnl|CDD|33681 COG3893, COG3893, Inactivated superfamily I helicase [DNA
replication, recombination, and repair].
Length = 697
Score = 503 bits (1295), Expect = e-142
Identities = 290/754 (38%), Positives = 405/754 (53%), Gaps = 59/754 (7%)
Query: 6 PNVFTIAPSSPFFREMIPALLNGTLVENFRYDPLNPLLLASVTIYVPTKRAIQELRSEFI 65
VF+I P PF + ALLNG L FR PL+PL LAS TIYVPT + LR F+
Sbjct: 1 MRVFSIPPGPPFLPTLAEALLNGRLTPGFR-MPLDPLALASATIYVPTSA--RALRHFFV 57
Query: 66 EITGKKSTILPIIKSLGDVVEEKFTADLLLSYNLNPPVSNIQRLLELARLILIWRNKLPD 125
++ G ++ +LP I+ LG E F A+ +L PP+S+ +RL+ LARLIL WR+ LP
Sbjct: 58 DLGGGRA-LLPRIRPLG---EAFFDAEPAAYLDLAPPISSRERLILLARLILAWRDSLPK 113
Query: 126 IIKDLYPESPLSLPISPANAIWLAKNLADIIDIIETEEKKWEDLHALKNEKYGMWWLLAA 185
+ L+ + L P S A+AIWLA+NL+++ D+ +TE +W+ L L WW +
Sbjct: 114 HVLALF-QDELFFPASTADAIWLARNLSELFDLFDTESSEWDKLDDLATGDLAAWWQVTL 172
Query: 186 DFLKIASKYWTERLVELNASSPVGYQIALMRAEAEHLMKGT-KGPIIIAGSTGSIPATAR 244
+FL+I W +RL EL S+P ++ AL RAEA L GP+I AGSTG PATA
Sbjct: 173 EFLEIVYDAWPKRLEELGRSNPAAHRNALFRAEAMRLKNNPPTGPVIAAGSTG--PATAD 230
Query: 245 LMSTVANHPNGAIVLPGLDCHIPTAIWNTITEKSTNITSSNTTYSTHPQYSLAKLLDFLD 304
L++ +A P GA+VLPGLD W I HPQY LL
Sbjct: 231 LLAVIAALPQGAVVLPGLDE------WQAI--------------EGHPQYGFHSLLG--- 267
Query: 305 IKREDVKRLGNVSNEMYGRSMVISKSFLPPDTSDMRNTDILENKIPNIQKCFSDVALIEA 364
+R+ + + ++ P + T + + + V LIEA
Sbjct: 268 AERQLLLEIAEAD-----------EALRPAEL-----TASWDKYNRGFLEALAFVTLIEA 311
Query: 365 DNEREEAISIAIALRMSLDENKKKSALITADRNLARRVKLELTRFGINIDISAGIPLSTT 424
NER+EA +IA+ALR +L E + +AL+T DRNLARRV EL RFG+ D SAG PLS T
Sbjct: 312 ANERDEAYAIALALREAL-EAPRTAALVTPDRNLARRVATELARFGVEADDSAGTPLSAT 370
Query: 425 LHSSILTSLLNAIFKLNDFMAIATLVKHPLAKFGFPEKYLSRAKNALELVALRGNKNSYD 484
+++L L+ A+ + D +A+ L+KHPLA+FG L A N LEL ALRG K S
Sbjct: 371 PQAALLMLLIEAVLRPGDPVALLALLKHPLARFGLEFLDLRDAANVLELAALRGGKVSPG 430
Query: 485 IMDLKSLVLDRIATQKNNTHVPHWQSRLSEEDKELAVLLVDHILQCITPLVTYKTNKNST 544
+L +L+ R+ ++ P W++ L ++ LA LL+ I + PL
Sbjct: 431 YGELPALLEARLLGTSDDDLPPAWRAGLDPDNIALARLLLQRISEAKAPL-----GAGHF 485
Query: 545 CGNLSISDWTKLTVTCLQNVCLDEHRKLPNLWFEEEGKTLSSLFSKIIETGSCIKANAIE 604
+ TV L+N+ +D+ L LW E G+ L++L +IE G+ + +A E
Sbjct: 486 EAIADLLALALDTVRALENLAIDDEGYLLALWLGEAGEKLAALLRGLIEAGA--QLSAPE 543
Query: 605 WIDIITRLIDGETVKPKIEKSSTLFILGTLESRLLNFDTLILGGLNEGVWPKNTAKNPFL 664
W DI+ L+ GETVKP + I+G LE+RL FD +++ GLNEGVWP T + FL
Sbjct: 544 WPDILDALVAGETVKPAPGTHPRVRIMGALEARLQRFDGVVIVGLNEGVWPSKTPNDLFL 603
Query: 665 SRVMQSDLNLKTAEKYIGQAAHD-FEMANGTRHLIYTRSLRENNIPTIASRWLQRLLVLG 723
SR M+ L L E+ IG AHD F+MA ++ TRS R P ++SRWL+RLL L
Sbjct: 604 SRPMRKSLGLPPPERRIGLQAHDYFQMAKNAPEVVLTRSERSGEAPAVSSRWLERLLTLL 663
Query: 724 GTDFFDNLKKRGQCYLDWTRKLDYTTKQPHYKRP 757
G + L++RG L W+R LD Q RP
Sbjct: 664 GEAGTEQLRRRGDALLHWSRLLDEGEPQAPVPRP 697
>gnl|CDD|32713 COG2887, COG2887, RecB family exonuclease [DNA replication,
recombination, and repair].
Length = 269
Score = 126 bits (317), Expect = 3e-29
Identities = 71/267 (26%), Positives = 119/267 (44%), Gaps = 6/267 (2%)
Query: 770 YSFSEIKQLINDPYAVYARRILKLDFIPHFKKDPDRTDRGTLFHNIITELIKKRINKNTP 829
S S + L PY YARRIL L + ++P+ RGTL H I+ L+ +R +
Sbjct: 1 LSVSRAEALRRCPYLFYARRILALPPLGTRAEEPEAAVRGTLLHAILEALVGERYHAAAA 60
Query: 830 EINHLMKQIIDSHFEKENLPPHIDIIWRHLFHKISHSFLE--HEEKIQSSIEKIFVNIPA 887
+ L ++ + LP + D W + +FL E + ++
Sbjct: 61 ALAKLAW-LLRKELAEAELPGYTDAEWLDRLRARARAFLVYDWERERGTAFHAWLEEERG 119
Query: 888 KMAIESIGIHLTGFADRIDLLKSGFVDITDYKTGDNPKKETAQKLIDPQLSLEAAALKAG 947
+ GI L G ADRID G ++I DYKTG +P A + PQL+LEA AL G
Sbjct: 120 AELLIDGGIRLRGRADRIDKDADGELEILDYKTGKSPSAARAPAAVSPQLALEALALIEG 179
Query: 948 SFSQIDCRKVANLFYIRLKQKFKIDCITNDKKKYSADELSEKSLKNLIEIVTLLQNGEQP 1007
F ++ L + L++ ++ +++++ L+ ++L L E++ L+ +
Sbjct: 180 RFRGVEP---GQLRLVYLRKSGRVGEAPDNREQLPQLALAREALAELAELLAGLEVRPRG 236
Query: 1008 FISHLRLSEKSNIQSEYDHLARVAEWR 1034
+ S L ++ Y LAR+ E
Sbjct: 237 YSSRCDLCPHQDLCPAYGGLARLLEGS 263
>gnl|CDD|33647 COG3857, AddB, ATP-dependent nuclease, subunit B [DNA replication,
recombination, and repair].
Length = 1108
Score = 45.3 bits (107), Expect = 8e-05
Identities = 43/236 (18%), Positives = 70/236 (29%), Gaps = 44/236 (18%)
Query: 763 LEAQPRTYSFSEIKQLINDPYAVYARRILKLDFIPHFKKDPDRTDRGTLFHNIITELIK- 821
L + S S +++ P++ + L L D D G FH + + +
Sbjct: 745 LYGEELYLSVSRLEKFYRCPFSYFLEYGLGLKERKDIH--LDARDLGNFFHRVFERISEE 802
Query: 822 -KRINKNTPEINHLMKQIIDSHFEKENLPPHIDIIWRHLFHKISHSFLEHE------EKI 874
N++ +N + + + L +I S +E E I
Sbjct: 803 ENLENQDWNFLNEEDCERLTQKIVEVLLE--------KEQEQILLSSARYEYTLEKLEDI 854
Query: 875 QSSIEKIFVNIPAKMAIESIG----------------------IHLTGFADRIDLLKSG- 911
I E IG I L G DRID L+
Sbjct: 855 VRRTATILAEQAKFSDFEPIGEEASFGLKGLPPLTIGLPSGSEILLRGRIDRIDQLEKDG 914
Query: 912 FVDITDYKTGDNPKKET-AQKLIDPQLSLEAAALKAGSFSQIDCRKVANLFYIRLK 966
++ I DYK+ + T + QL A+K + D K Y +
Sbjct: 915 YLGIVDYKSSAHQFDLTDVYYGLSLQLMTYLDAIKQN--APEDDVKPGGALYFHMH 968
>gnl|CDD|144384 pfam00762, Ferrochelatase, Ferrochelatase.
Length = 312
Score = 30.6 bits (70), Expect = 2.2
Identities = 12/76 (15%), Positives = 27/76 (35%), Gaps = 12/76 (15%)
Query: 762 PLEAQPRTYSFSEIKQLINDPYAVYA--RRILKLDFIPHFKKDPDRTDRGTLFHNIITEL 819
PL Q YS S +++ R ++ I + P + + +
Sbjct: 119 PLYPQ---YSASTTGSYLDELARALKKGRPAPEVRVIRRYYDHPG-------YIEALADS 168
Query: 820 IKKRINKNTPEINHLM 835
I++ + K + + L+
Sbjct: 169 IREALAKLGDDPDRLL 184
>gnl|CDD|177097 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 30.3 bits (68), Expect = 2.6
Identities = 36/160 (22%), Positives = 59/160 (36%), Gaps = 31/160 (19%)
Query: 771 SFSEIKQLINDPYAV--YARRILKLDFIPHFKKDPDRTDRGTLFHNIITELIKKRINKNT 828
+ I+ LI Y+ Y R +L F+ +R+DR N + + +I +T
Sbjct: 718 QYRLIRNLIQIQYSTYGYIRNVLNRFFLM------NRSDR-----NFEYGIQRDQIGNDT 766
Query: 829 PEINHLMKQIIDSHFEKEN------LPPHIDI------------IWRHLFHKISHSFLEH 870
+MK I+ H P I I +R+ + S +F EH
Sbjct: 767 LNHRTIMKYTINQHLSNLKKSQKKWFDPLIFISRTERSMNRDPDAYRYKWSNGSKNFQEH 826
Query: 871 EEKIQSSIEKIFVNIPAKMAIESIGIHLTGFADRIDLLKS 910
E S + F + ++ I I + D+ DL KS
Sbjct: 827 LEHFVSEQKSRFQVVFDRLRINQYSIDWSEVIDKKDLSKS 866
>gnl|CDD|36343 KOG1128, KOG1128, KOG1128, Uncharacterized conserved protein,
contains TPR repeats [General function prediction only].
Length = 777
Score = 30.0 bits (67), Expect = 3.9
Identities = 23/83 (27%), Positives = 34/83 (40%), Gaps = 11/83 (13%)
Query: 68 TGKKSTILPIIKSLGDVVEEKFTADLLLSY---NLNPPVSNIQRLLELARLILIWRNKLP 124
TG K + ++VEEK A + L +L ++Q LL ARL+L
Sbjct: 79 TGPKCDLPLRSFISSELVEEKLWAKIQLMSSGSDLLGKFKSLQLLL-FARLLLEK----- 132
Query: 125 DIIKDLYPESPLSLPISPANAIW 147
+KDL PE ++ W
Sbjct: 133 --LKDLLPEITITETFILRVLSW 153
>gnl|CDD|38809 KOG3603, KOG3603, KOG3603, Predicted phospholipase D [General
function prediction only].
Length = 456
Score = 29.5 bits (66), Expect = 4.9
Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 420 PLSTTLHSSILTSLLNAIFKLNDFMAIATLVKHPLAKFGFPEKYLSRAKNALELVALRGN 479
PL+ + + L ++LN I + F+ I+ + P + ++ +A+ A+RG
Sbjct: 268 PLNPSGRTWDLEAILNTIDEAQKFVYISVMDYFPSTIYSKNHRF-WEIDDAIRRAAVRGV 326
Query: 480 K 480
K
Sbjct: 327 K 327
>gnl|CDD|39769 KOG4569, KOG4569, KOG4569, Predicted lipase [Lipid transport and
metabolism].
Length = 336
Score = 29.6 bits (66), Expect = 5.0
Identities = 19/105 (18%), Positives = 35/105 (33%), Gaps = 16/105 (15%)
Query: 765 AQPRT--YSFSEIKQLINDPYAVYARRILKLDFIPHFKKDPDRTDRGTLFHNIITELIKK 822
QPR +F+E ++ R + + D +PH +H+ TE+
Sbjct: 209 GQPRVGNLAFAE---WHDELVPYSFRVVHRRDIVPHLPGIVSHVGTELYYHH-RTEVWLY 264
Query: 823 RINKNTPEINHLMKQI-------IDSHFEKENLPPHIDIIWRHLF 860
N N + H+ D + ++L D + H
Sbjct: 265 NNNMNLEDPYHICDGADGEDPLCSDRNKALDSLE---DGLLVHGH 306
>gnl|CDD|88566 cd04519, RasGAP, RasGAP: Ras-GTPase Activating Domain. RasGAP
functions as an enhancer of the hydrolysis of GTP that
is bound to Ras-GTPases. Proteins having a RasGAP domain
include p120GAP, IQGAP, Rab5-activating protein 6, and
Neurofibromin. Although the Rho (Ras homolog) GTPases
are most closely related to members of the Ras family,
RhoGAP and RasGAP show no sequence homology at their
amino acid level. RasGTPases function as molecular
switches in a myriad of signaling pathways. When bound
to GTP they are in the on state and when bound to GDP
they are in the off state. The RasGap domain speeds up
the hydrolysis of GTP in Ras-like proteins acting as a
negative regulator..
Length = 318
Score = 29.3 bits (65), Expect = 5.0
Identities = 15/97 (15%), Positives = 39/97 (40%), Gaps = 2/97 (2%)
Query: 781 DPYAVYARRILKLDFIPHFKKDPDRT-DRGTLFHNIITELIKKRINKNTPEINHLMKQII 839
P ++Y + I + K + + + + +N + L+++ +
Sbjct: 79 RPLSIYLKLIGQEYLQKTLKPVILELVESPESLEIDTKPEVSEDLEENLENLRELLEKFL 138
Query: 840 DSHFEK-ENLPPHIDIIWRHLFHKISHSFLEHEEKIQ 875
D+ ++LPP + I + L+ ++ F E +E +
Sbjct: 139 DAIISSLDSLPPGLRYICKQLYESVAEKFPEEDEALS 175
>gnl|CDD|147618 pfam05536, Neurochondrin, Neurochondrin. This family contains
several eukaryotic neurochondrin proteins. Neurochondrin
induces hydroxyapatite resorptive activity in bone
marrow cells resistant to bafilomycin A1, an inhibitor
of macrophage- and osteoclast-mediated resorption.
Expression of the gene is localized to chondrocyte,
osteoblast, and osteocyte in the bone and to the
hippocampus and Purkinje cell layer of cerebellum in the
brain.
Length = 542
Score = 29.3 bits (66), Expect = 5.1
Identities = 29/138 (21%), Positives = 48/138 (34%), Gaps = 19/138 (13%)
Query: 68 TGKKSTILPIIKSLGDVVEEKFTADLLLSYNLNP---PVSNIQRLLELARLILI------ 118
G + + +E+ LLL L+ ++ L RL +
Sbjct: 139 LGAVPALCQAYSNGSFGLEQALHLLLLLLSALDSKSWTEKDLDLTAVLTRLAELFQVLEG 198
Query: 119 -WRNKLPDIIKDLYPESPLSLPISPANAIWLAKNLADIIDIIETEEKKWEDLHALKNEKY 177
+ +L D++ DL P S L S IWL + + I+ ++ + ALK
Sbjct: 199 TRKFELLDLLPDLLPRSEPILLRSSQGEIWLRQLQKGLAAILSSKLTPSQRDPALK---- 254
Query: 178 GMWWLLAADFLKIASKYW 195
LAA+ L W
Sbjct: 255 -----LAANLLSALGPQW 267
>gnl|CDD|31995 COG1810, COG1810, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 224
Score = 29.1 bits (65), Expect = 6.4
Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 10/70 (14%)
Query: 54 KRAIQ-----ELRSEFIEITGKKSTILPIIKSLGDVVEEKFTADLLLSYNLNPPVSNIQR 108
KRA+ +++F+ + + I+ D++ + AD++++Y L+P +
Sbjct: 14 KRAVNNLACKGFKNQFVAVKEYPEELPDFIEEPEDLLPKLPEADIVVAYGLHPDL----- 68
Query: 109 LLELARLILI 118
LL L
Sbjct: 69 LLALPEKAAE 78
>gnl|CDD|32995 COG3182, PiuB, Uncharacterized iron-regulated membrane protein
[Function unknown].
Length = 442
Score = 28.8 bits (64), Expect = 7.9
Identities = 19/94 (20%), Positives = 31/94 (32%), Gaps = 4/94 (4%)
Query: 165 KWEDLHALKNEKYGMWWLLAADFLKIA-SKYWTERLVELNASSPVGYQIALMRAEAEHLM 223
W DLHA+ + +L A +A S W ++V L P G ++ +
Sbjct: 184 FWRDLHAVLGLWCSLLFLFLA-LTGLAWSGVWGAKVVNLATGFPAGQPAGVVASAPMGA- 241
Query: 224 KGTKGPIIIAGSTGSIPATARLMSTVANHPNGAI 257
I ++ S V P +I
Sbjct: 242 -TALNLIAADEVPWALEGAPVPDSHVRALPPLSI 274
>gnl|CDD|36658 KOG1445, KOG1445, KOG1445, Tumor-specific antigen (contains WD
repeats) [Cytoskeleton].
Length = 1012
Score = 28.9 bits (64), Expect = 8.4
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 22 IPALLNGTLVENFRYDPLNPLLLA 45
+P L NGTLV + +DP + LA
Sbjct: 621 MPGLFNGTLVTDLHWDPFDDERLA 644
>gnl|CDD|36151 KOG0933, KOG0933, KOG0933, Structural maintenance of chromosome
protein 2 (chromosome condensation complex Condensin,
subunit E) [Chromatin structure and dynamics, Cell cycle
control, cell division, chromosome partitioning].
Length = 1174
Score = 28.8 bits (64), Expect = 9.0
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 977 DKKKYSADELSEKSLKNLIEIVTLLQNGEQPFISHLRLSEKS------NIQSEYDHLARV 1030
+ KK +A++ EK L EI TLL+ P + LR E+S I + + L+R+
Sbjct: 175 ENKKEAAEKTIEKKETKLKEINTLLREEILPRLEKLR-EERSQYLEYQKINRDLERLSRI 233
Query: 1031 AEWREEYDIS 1040
E
Sbjct: 234 CIAYEYLQAE 243
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
0.319 0.135 0.394
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 12,642,913
Number of extensions: 688035
Number of successful extensions: 1819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1805
Number of HSP's successfully gapped: 31
Length of query: 1040
Length of database: 6,263,737
Length adjustment: 104
Effective length of query: 936
Effective length of database: 4,016,401
Effective search space: 3759351336
Effective search space used: 3759351336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.7 bits)