RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780791|ref|YP_003065204.1| exodeoxyribonuclease VII large
subunit [Candidatus Liberibacter asiaticus str. psy62]
(529 letters)
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
translation termination, ATP-binding, cytoplasm,
hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
(A:1-326)
Length = 326
Score = 39.0 bits (90), Expect = 0.001
Identities = 27/205 (13%), Positives = 67/205 (32%), Gaps = 67/205 (32%)
Query: 236 IANSSIPIISAIGHETDWTLADYAADL--RAPTPTG--AAEMAVPVKEHLQSSLINLEAR 291
I ++P++ L++ ++ ++ + TG AA A+ + + +S+ +A
Sbjct: 145 IQEKALPLL----------LSNPPRNMIGQSQSGTGKTAA-FALTMLSRVDASVPKPQAI 193
Query: 292 LNNIIIRLIKYKINTLNSLLKALPNSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYR--- 348
L + ++ + + K + + D +P+ + + +I+I
Sbjct: 194 CLAPSRELARQIMDVVTEMGKYTE-----VKTAFGIKDSVPKGAKIDAQIVIGTPGTVMD 248
Query: 349 ---------------------------HFNHIINRIKSDFLIHNIQKNRQHIL------E 375
RI H + +N Q +L E
Sbjct: 249 LMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRI-----KHLLPRNTQIVLFSATFSE 303
Query: 376 KQQHIEQIVKQHLR---YIFLEKKE 397
+ +E+ ++ I L+ +E
Sbjct: 304 R---VEKYAERFAPNANEIRLKTEE 325
>1sg6_A Pentafunctional AROM polypeptide; shikimate pathway,
aromatic amino acid biosynthesis, DHQS, open form, form
J, domain movement, cyclase; HET: NAD; 1.70A {Emericella
nidulans} (A:1-181)
Length = 181
Score = 34.4 bits (78), Expect = 0.033
Identities = 20/161 (12%), Positives = 42/161 (26%), Gaps = 16/161 (9%)
Query: 91 KITTFPGSSKYQIIIESLIPSGSGTLLTALEKRKKKLLEEGLFSDQHKNPIPFIPKIIAV 150
T + II + + + + L +D +
Sbjct: 3 NPTKISILGRESIIADFGLWRNYVAKDLISDCSSTTYV---LVTDTN------------- 46
Query: 151 ITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKEGRTCPRPD 210
I S + ++ + + E K + + D
Sbjct: 47 IGSIYTPSFEEAFRKRAAEITPSPRLLIYNRPPGEVSKSRQTKADIEDWMLSQNPPCGRD 106
Query: 211 IIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHET 251
+++A GGG I DL F +R + +P ++
Sbjct: 107 TVVIALGGGVIGDLTGFVASTYMRGVRYVQVPTTLLAMVDS 147
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold; HET: DNA; 3.00A {Thermus
aquaticus} PDB: 2hpm_A* 3e0d_A* (A:1024-1128)
Length = 105
Score = 32.1 bits (73), Expect = 0.19
Identities = 15/100 (15%), Positives = 40/100 (40%), Gaps = 8/100 (8%)
Query: 14 EYSVSELSYHLKHIVESNLSHVCVRGEISGYRGIHS-SGH--AYFSLKDNHSRIDAIIWK 70
++ ELS ++ + V + G + + SG A F+L D ++ +++
Sbjct: 3 SCTIEELSEFVRELPGK--PKVLLSGMVEEVVRKPTRSGGMMARFTLSDETGALEVVVFG 60
Query: 71 GTLNKIEFLPEEGIEFLVIGKITTFPGSSKYQIIIESLIP 110
+ +E I LV+ ++ +++ +++
Sbjct: 61 RAYEGVSPKLKEDIPLLVLAEVEKGEE---LRVLAQAVWT 97
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} (A:160-248)
Length = 89
Score = 31.6 bits (72), Expect = 0.24
Identities = 11/74 (14%), Positives = 21/74 (28%), Gaps = 2/74 (2%)
Query: 33 SHVCVRGEISGYRGIHSSGH--AYFSLKDNHSRIDAIIWKGTLNKIEFLPEEGIEFLVIG 90
V +G+I L D + + + G E V G
Sbjct: 7 EKVTTQGKIVSVETKKFQNMNILTAVLSDGLVHVPLKWFNQDYLQTYLKQLTGKEVFVTG 66
Query: 91 KITTFPGSSKYQII 104
+ + + +Y+I
Sbjct: 67 TVKSNAYTGQYEIH 80
>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase
C; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB:
3f2c_A* 3f2d_A* (A:1-110)
Length = 110
Score = 31.3 bits (71), Expect = 0.31
Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 5/81 (6%)
Query: 35 VCVRGEISGYRGIHS-SGH--AYFSLKDNHSRIDAIIWKGTLNKIEFLP--EEGIEFLVI 89
V V+G + SG + D + I ++ E + ++G+ V
Sbjct: 20 VVVQGYVFDAEVSELKSGRTLLTMKITDYTNSILVKMFSRDKEDAELMSGVKKGMWVKVR 79
Query: 90 GKITTFPGSSKYQIIIESLIP 110
G + II L
Sbjct: 80 GSVQNDTFVRDLVIIANDLNE 100
>2z7x_B TOLL-like receptor 1, variable lymphocyte receptor B; TLR2,
TLR1, lipopeptide, innate immunity, glycoprotein, immune
response, inflammatory response, leucine-rich repeat,
membrane; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}
(B:1-484)
Length = 484
Score = 31.1 bits (68), Expect = 0.33
Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 4/54 (7%)
Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQH 372
+ S+ L +P++L I+ N+I SD L + +
Sbjct: 3 FLVDRSKNGLIHVPKDLSQKTTILNI----SQNYISELWTSDILSLSKLRILII 52
>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET:
NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A*
3ciy_A* (A:)
Length = 680
Score = 30.0 bits (65), Expect = 0.67
Identities = 7/69 (10%), Positives = 20/69 (28%), Gaps = 6/69 (8%)
Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILEKQQ 378
+ CS +L ++P +L N+ ++ N + + +
Sbjct: 7 EVADCSHLKLTQVPDDLPTNITVLNL----THNQLRRLP--AANFTRYSQLTSLDVGFNT 60
Query: 379 HIEQIVKQH 387
+ +
Sbjct: 61 ISKLEPELC 69
>2z63_A TOLL-like receptor 4, variable lymphocyte receptor B; TLR4,
MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo
sapiens} (A:1-534)
Length = 534
Score = 29.7 bits (64), Expect = 0.82
Identities = 7/53 (13%), Positives = 16/53 (30%), Gaps = 4/53 (7%)
Query: 316 NSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQK 368
+ T C ++P L + + + FN + + F +
Sbjct: 7 VPNITYQCMELNFYKIPDNLPFSTKNLDL----SFNPLRHLGSYSFFSFPELQ 55
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae} (A:1221-1330,A:1541-1688)
Length = 258
Score = 29.5 bits (66), Expect = 1.0
Identities = 15/115 (13%), Positives = 32/115 (27%), Gaps = 30/115 (26%)
Query: 321 LSCSRYRL--DRLPRELEHNLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILE--- 375
L+ +R + L + KYR + + I+ ++ LE
Sbjct: 7 LTTAREHHSSVKYASPN---LNM----KYR-------KRQLVTREAQIKDWVENELEALK 52
Query: 376 ------KQQHIEQIVKQHLRYIFLEKKEKIA-ILHMLREQTKNRIFYLHTHIKKL 423
+ + + + R I E + ++ N + I L
Sbjct: 53 LEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQW----GNDFYKRDPRIAPL 103
Score = 26.8 bits (59), Expect = 7.3
Identities = 11/79 (13%), Positives = 27/79 (34%), Gaps = 9/79 (11%)
Query: 348 RHFNHIINRIKSDFLIHNIQKNRQHILEKQQHIEQIVKQHLRYIFLEKKEKIAILHMLRE 407
R +H + S L N++ ++ ++ ++ I+ V+ L + K + + E
Sbjct: 11 RE-HHSSVKYASPNL--NMKYRKRQLVTREAQIKDWVENELEAL----KLEAE--EIPSE 61
Query: 408 QTKNRIFYLHTHIKKLITR 426
+ I
Sbjct: 62 DQNEFLLERTREIHNEAES 80
>3clh_A 3-dehydroquinate synthase; shikimate pathway, aromatic amino
acid biosynthesis, DHQS, amino-acid biosynthesis,
cytoplasm, lyase, NAD; HET: NAD; 2.40A {Helicobacter
pylori} (A:1-160)
Length = 160
Score = 29.7 bits (66), Expect = 1.0
Identities = 22/109 (20%), Positives = 37/109 (33%), Gaps = 15/109 (13%)
Query: 148 IAVITSPT-----GAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKE 202
+I+ + + L+ +RV + E K + LN E
Sbjct: 29 ALIISDSIVAGLHLPYLLERLKA----LEVRVCVIE----SGEKYKNFHSLERILNNAFE 80
Query: 203 GRTCPRPDIIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHET 251
+ R ++I A GGG I D+ F + R I +IP +
Sbjct: 81 MQ-LNRHSLMI-ALGGGVISDMVGFASSIYFRGIDFINIPTTLLAQVDA 127
>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte
receptor B; TLR2, PAM3CSK4, lipopeptide, innate
immunity, cytoplasmic vesicle; HET: NAG BMA MAN PCJ;
1.80A {Mus musculus} PDB: 2z82_A* 2z7x_A* (A:1-513)
Length = 513
Score = 28.5 bits (61), Expect = 2.1
Identities = 5/52 (9%), Positives = 12/52 (23%), Gaps = 12/52 (23%)
Query: 306 TLNSLLKALPNSDQTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHIINRI 357
+ ++ +P L ++ + FN I
Sbjct: 3 SCDAS--------GVCDGRSRSFTSIPSGLTAAMKSLDL----SFNKITYIG 42
>3g23_A Peptidase U61, LD-carboxypeptidase A; structural genomics,
joint center for structural genomics, JCSG; HET: MSE;
1.89A {Novosphingobium aromaticivorans DSM12444}
(A:1-155,A:263-274)
Length = 167
Score = 28.3 bits (63), Expect = 2.2
Identities = 14/93 (15%), Positives = 28/93 (30%), Gaps = 7/93 (7%)
Query: 148 IAVITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKE---IANAILQ-LNTLKEG 203
IA+ +P+ R+ R+ + ++C A + L+ E
Sbjct: 6 IAIC-APSTPFTREDSARVIALAAAEFPDLSLSF-HEQCFASEGHFAGSDALRLSAFLEC 63
Query: 204 RTCPRPDIIILARGG-GSIEDLWHFNDEMIVRA 235
+ + RGG G+ + A
Sbjct: 64 ANDDAFEAVWFVRGGYGANRIAEDALARLGRAA 96
>1xah_A Sadhqs, 3-dehydroquinate synthase; shikimate pathway,
aromatic amino acid biosynthesis, open form, form B,
domain movement, cyclase; HET: NAD; 2.20A
{Staphylococcus aureus} PDB: 1xag_A* 1xai_A* 1xaj_A*
1xal_A* (A:1-165)
Length = 165
Score = 27.0 bits (59), Expect = 6.3
Identities = 13/106 (12%), Positives = 28/106 (26%), Gaps = 5/106 (4%)
Query: 148 IAVITSPTGAVIRDILQRISCRFPLRVIIFPVKVQGDECPKEIANAILQLNTLKEGRTCP 207
++ V + + + + G++ +
Sbjct: 34 SFLLIDEY--VNQYFANKFDDILSYENVHKVIIPAGEKTKTF--EQYQETLEYILSHHVT 89
Query: 208 RPDIIILARGGGSIEDLWHFNDEMIVRAIANSSIPIISAIGHETDW 253
R II A GGG+ D F ++R + +P +
Sbjct: 90 RNTAII-AVGGGATGDFAGFVAATLLRGVHFIQVPTTILAHDSSVG 134
>3l39_A Putative PHOU-like phosphate regulatory protein; BT4638,
structural genomics, joint center for structural
genomics, JCSG; 1.93A {Bacteroides thetaiotaomicron}
(A:)
Length = 227
Score = 26.7 bits (58), Expect = 6.7
Identities = 18/151 (11%), Positives = 43/151 (28%), Gaps = 1/151 (0%)
Query: 279 EHLQSSLINLEARLNNIIIRLIKYKINTLNSLLKALPNSDQTLSCSRY-RLDRLPRELEH 337
S E + ++ +L + L++++ + T Y ++ + RE +
Sbjct: 15 NSFFSKFTPKEPKFFPLLKQLSDVLSASSVLLVESMEHDLPTERADYYKQIKDMEREGDR 74
Query: 338 NLEIIIFRKYRHFNHIINRIKSDFLIHNIQKNRQHILEKQQHIEQIVKQHLRYIFLEKKE 397
+I F +R L + I + I + + E
Sbjct: 75 LTHLIFDELSTTFITPFDREDIHDLASCMDDVIDGINSSAKRIVIYNPRPISESGKELSR 134
Query: 398 KIAILHMLREQTKNRIFYLHTHIKKLITRIE 428
I + + + + + K L
Sbjct: 135 LIHEEAINIGKAMDELETFRKNPKPLRDYCT 165
>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific
LRR-IG containing, ligand binding protein, membrane
protein; HET: NAG MAN; 2.70A {Homo sapiens} (A:1-375)
Length = 375
Score = 26.7 bits (57), Expect = 6.8
Identities = 6/35 (17%), Positives = 12/35 (34%), Gaps = 4/35 (11%)
Query: 319 QTLSCSRYRLDRLPRELEHNLEIIIFRKYRHFNHI 353
+ + C R R +P + ++ N I
Sbjct: 14 RAVLCHRKRFVAVPEGIPTETRLLDL----GKNRI 44
>1pq4_A Periplasmic binding protein component of AN ABC type zinc
uptake transporter; ZNUA, loop, metal-binding, metal
binding protein; 1.90A {Synechocystis SP} (A:189-270)
Length = 82
Score = 26.6 bits (59), Expect = 8.9
Identities = 5/39 (12%), Positives = 13/39 (33%)
Query: 380 IEQIVKQHLRYIFLEKKEKIAILHMLREQTKNRIFYLHT 418
I+ + +L +F E + + + + L
Sbjct: 42 IDTAKENNLTMVFGETQFSTKSSEAIAAEIGAGVELLDP 80
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.321 0.137 0.398
Gapped
Lambda K H
0.267 0.0504 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 3,991,772
Number of extensions: 188029
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 595
Number of HSP's successfully gapped: 43
Length of query: 529
Length of database: 4,956,049
Length adjustment: 93
Effective length of query: 436
Effective length of database: 1,812,184
Effective search space: 790112224
Effective search space used: 790112224
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 (21.9 bits)
S2: 57 (26.3 bits)