RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= 537021.9.peg.410_1
(952 letters)
>gnl|CDD|163018 TIGR02784, addA_alphas, double-strand break repair helicase AddA,
alphaproteobacterial type. AddAB, also called RexAB,
substitutes for RecBCD in several bacterial lineages.
These DNA recombination proteins act before synapse and
are particularly important for DNA repair of
double-stranded breaks by homologous recombination. The
term AddAB is used broadly, with AddA homologous between
the alphaproteobacteria (as modeled here) and the
Firmicutes, while the partner AddB proteins show no
strong homology across the two groups of species.
Length = 1141
Score = 746 bits (1928), Expect = 0.0
Identities = 333/950 (35%), Positives = 495/950 (52%), Gaps = 40/950 (4%)
Query: 1 LKNRFGLSLNESYELIYKDLWPLPYFQVSDINKYVSLSMETGN--PTILKKAQTLQQASQ 58
L FGL ++ E + + +WPLP ++ +L G AQ L++A
Sbjct: 213 LHRAFGLPPGDTAEDLLEAVWPLPGLPGLALDLIAALLKSGGGSQDANAALAQ-LREARA 271
Query: 59 TQCIEERFSLLSSFFLTQKFTPQKN--IITQEINKKSPDLKEKLKKSQDEFIKIRDRFNT 116
R LL FLT K P+ +I +++ K PDL E L+ + +RDR
Sbjct: 272 ESDPVARLDLLLGAFLTSKGEPKSASAVIKKKMQKALPDLMEALELAASRLEALRDRLRA 331
Query: 117 YKMFKSTLASLTLAKYLNAHYEEAKKKNCVLDFEDLIINTNDLLKKRDVSAWIRYKIDQE 176
+M + TLA+L LA L Y+ KK +LDF DLI T LL + AW+ YK+D+
Sbjct: 332 VRMAQLTLAALRLAARLLQRYDRLKKARGLLDFNDLIERTVALLARPGAGAWVHYKLDRG 391
Query: 177 INHILIDEVQDTSLIQWEVIRSLTEDFFVGKNTHSSP-RTLFAVGDEKQSIYSFHGAEPK 235
I+HIL+DE QDTS QW++I++L E+FF G+ S RT+FAVGDEKQSIYSF GA+P
Sbjct: 392 IDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQSIYSFQGADPD 451
Query: 236 RVLREKRINQKRATNAGQKFSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTI 295
R E+R ++ G KF + L SFRST D+L VD VF+ PEN +GLS DS
Sbjct: 452 RFAEERREFNRKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLV- 510
Query: 296 RHRSSRIGQVGTVQLWEQVVSQHDSQCNPQQESWTSYFDSLPQESSASILARRIAYTISN 355
H + R G V+LW ++S + + E WT+ D L + + LA RIA TI +
Sbjct: 511 VHEAIRSDLPGEVELW-DLISPEEGE---DPEDWTAPVDELGERAPEVRLAERIAATIRD 566
Query: 356 MIGTDTIFSNGKKRVIQAKDILVLVRKRKDTPLITFLTRFLKNDYKISVVGNDRFILTDH 415
+ T G+ R + DILVLVRKR ++ L R LK I V G DR LT H
Sbjct: 567 WLDRGTPIPKGRGRAARPGDILVLVRKRDA--FVSALIRALKRR-GIPVAGADRLKLTSH 623
Query: 416 LAIKDLMALGRFILSQEDDLSFVCMLKSPLFNFSEDDIFKICTQRHETETVYEYIQKFAN 475
+A++DLMALGRF+L EDDLS +LKSPLF E+D+F + R E+++ +++ A
Sbjct: 624 IAVQDLMALGRFVLQPEDDLSLAALLKSPLFGLDEEDLFALAAGRSGGESLWARLRRRA- 682
Query: 476 CGISKFQHVIKYIHELIHIAQFCSPHDFFTLILGAKKGRQQFISRFGNEVIDVLDEFLNF 535
++F + + +A F +P +F+ +LG GR++ ++R G E D+LDEFL+F
Sbjct: 683 ---AEFAEALAVLDAWRSLADFITPFEFYARLLGGDGGRRKLLARLGAEAEDILDEFLSF 739
Query: 536 TLRNEQNSYSSLQELISELEQYPPTIKRAHSANHNEVRIMTVHTAKGLESPVVFLVDTGS 595
L E+ LQ +S LE P IKR +EVR+MTVH AKGLE+PVVFLVDTGS
Sbjct: 740 ALALERTGLPGLQAFLSTLEAADPEIKREMDQRRDEVRVMTVHGAKGLEAPVVFLVDTGS 799
Query: 596 QVFSHKHIKKMHIMPSL--NDDPGIPIWIPQSKSRNNIVSDLIKHLKKSTQEEYNRLLYV 653
F+ +H K+ D P+W P S + + + LK+ ++EY RLLYV
Sbjct: 800 APFASQHAPKLLFTGGSGEASDGKAPLWRPPSAFDPALSAAARERLKERAEDEYRRLLYV 859
Query: 654 GMTRASDQLIICKHSNTSNEKKSNQRTWYDMVYDSF--HNDERVKKIKLTNSINKDEWIA 711
MTRA D+LI+C + + S + TWY +V + K EW
Sbjct: 860 AMTRAEDRLIVCGYRGK---RTSPKDTWYALVKRALAAAGIAWQPHPAQG----KTEWR- 911
Query: 712 YEWSTHHPENTPLEREETIKQLMDEQKIPKKLFSPIKNDINEPYILNPS------TIDTK 765
+ P+ EE + + +P L P + P L PS
Sbjct: 912 --YRYTRRGPDPVALEEPAAETDTAEALPDWLSRPAPAEPALPRPLAPSGASAAIDSAAP 969
Query: 766 GKTNLESLLSDNQTF--NRGLIIHKLLQVIFTLPEHKRKNFITSYCTKNAKLWPAKEYKN 823
G SL + F RG ++H+LLQ + L +R++ Y ++A WP E +
Sbjct: 970 GPAVRSSLGTQAPAFALRRGTLLHRLLQHLPDLAPEEREDAARRYLARSAADWPEAEREK 1029
Query: 824 LLLSITRLLENPMMTTAMSCDSYSEVSVSGKINCPKKDIIISGRIDQISISQQNIFIFEY 883
LL ++ +L++P + + S +EV++ G + +++ +SG+ID++++ + I +Y
Sbjct: 1030 LLAAVLAVLDDPRLAPVFAEGSRAEVAIMGTLKIGGQELAVSGQIDRLAVDDNRVLIVDY 1089
Query: 884 KTHHHVPQEIEHIPYTHIAQLSIYEKILKDSYPNKSLVCLLIYVSEPKVF 933
KT+ VP E +P ++ QL++Y +L+ YP K++ L++ PK+
Sbjct: 1090 KTNRPVPATPEEVPPAYLRQLALYRALLEPLYPGKTVEAALLWTEAPKLM 1139
>gnl|CDD|162191 TIGR01073, pcrA, ATP-dependent DNA helicase PcrA. Designed to
identify pcrA members of the uvrD/rep subfamily.
Length = 726
Score = 146 bits (369), Expect = 4e-35
Identities = 137/552 (24%), Positives = 217/552 (39%), Gaps = 136/552 (24%)
Query: 135 AHYEEAKKKNCVLDFEDLIINTNDLLKKR-DVSAWIRYKIDQEINHILIDEVQDTSLIQW 193
Y++ +N LDF+DLI+ T +L ++ DV + + K +I +DE QDT+ Q+
Sbjct: 171 QEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKF----QYIHVDEYQDTNRAQY 226
Query: 194 EVIRSLTEDFFVGKNTHSSPRTLFAVGDEKQSIYSFHGAEPKRVLREKRINQKRATNAGQ 253
++R L F R L VGD QSIY + GA+ + +L +K NA
Sbjct: 227 TLVRLLASRF----------RNLCVVGDADQSIYGWRGADIQNILS----FEKDYPNA-- 270
Query: 254 KFSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIRHRSSRIGQVGTVQLWEQ 313
+ I L ++RST +IL ++V I H S+R + LW +
Sbjct: 271 --TTILLEQNYRSTKNILQAANEV-----------------IEHNSNRKPK----NLWTE 307
Query: 314 VVSQHDSQCNPQQESWTSYFDSLPQESSASILARRIAYTISNMIGTDTIFSNGKKRVIQA 373
N + T Y+++ + A +A I D + NG+++
Sbjct: 308 ---------NSSGDKIT-YYEADTERDEAQFVAGEI----------DKLVKNGERK---Y 344
Query: 374 KDILVLVRKRKDTPLITFLTRFLKNDYKISVVGNDRFILTDHLAIKDLMALGRFILSQED 433
D +L R + F LK + +VG +F D IKD++A R I + +D
Sbjct: 345 GDFAILYRTNAQSR--VFEETLLKANIPYKIVGGLKFY--DRKEIKDILAYLRVIANPDD 400
Query: 434 DLSFVCMLKSPLFNFSEDDIFKICTQRHETETVY-------EYIQKFANCGISKFQHVIK 486
DLS + ++ P + KI E + I A +
Sbjct: 401 DLSLLRIINVPKRGIGASSLEKIVNYALELNISLFEAIGEIDEIGGLAAKSANALLAFAT 460
Query: 487 YIHELIHIAQFCSPHDFFTLILGAKKGRQQFISRFGNEV----IDVLDEFLNFTLRNEQN 542
I L ++ SP + +L K G ++ + E ++ LDEFL+ T E
Sbjct: 461 MIENLRQQQEYLSPTELVEEVL-DKSGYREMLKAEKTEEAQSRLENLDEFLSVTKEFEDE 519
Query: 543 S----------YSSLQELISELEQYPPTIKRAHSANHNEVRIMTVHTAKGLESPVVFLVD 592
S + L+S+L++ + V +MT+H AKGLE PVVFL+
Sbjct: 520 SEDKSLIDFLTDLA---LVSDLDELE------ETEEGGAVTLMTLHAAKGLEFPVVFLIG 570
Query: 593 TGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRNNIVSDLIKHLKKSTQEEYNRLLY 652
VF H SL D+ + EE RL Y
Sbjct: 571 MEEGVFPH--------SRSLMDEKEL--------------------------EEERRLAY 596
Query: 653 VGMTRASDQLII 664
VG+TRA ++L +
Sbjct: 597 VGITRAEEELYL 608
>gnl|CDD|163019 TIGR02785, addA_Gpos, recombination helicase AddA, Firmicutes type.
AddAB, also called RexAB, substitutes for RecBCD in
several bacterial lineages. These DNA recombination
proteins act before synapse and are particularly
important for DNA repair of double-stranded breaks by
homologous recombination. The term AddAB is used
broadly, with AddA homologous between the Firmicutes (as
modeled here) and the alphaproteobacteria, while the
partner AddB proteins show no strong homology across the
two groups of species.
Length = 1232
Score = 137 bits (347), Expect = 1e-32
Identities = 157/713 (22%), Positives = 272/713 (38%), Gaps = 106/713 (14%)
Query: 13 YELIYKDLWPLPYFQVSDINKYVSLSMETGNP-----TILKKAQTLQQASQTQCIEERFS 67
+ I L + K + L M + Q + + Q + ++
Sbjct: 208 QQQIKDLLKNELEGLQEKLQKALELFMAEDGLAPKLENFQLELQNIGELIQESLAQADWN 267
Query: 68 LLSSFFLTQKFTPQKNIIT----QEINKKSPDLKEKLKK-----SQDEFIK----IRDRF 114
L KF K ++ +++ L+E+ KK D F +
Sbjct: 268 ELREAVALFKFENLKAAKNAEEKADLKEEADKLREEAKKQIAKLKTDYFARDEEDYLRIM 327
Query: 115 NTYKMFKSTLASLTLAKYLNAHYEEAKKKNCVLDFED-----LIINTNDLLKKRDVSAWI 169
K LA L + K++ VLDF D L I +N+ + + +
Sbjct: 328 QELKPIVKALAQLVKD--FIEAFGAEKREKNVLDFSDLEHYALQILSNENESPSEAAEFY 385
Query: 170 RYKIDQEINHILIDEVQDTSLIQWEVIRSLTEDFFVGKNTHSSPRTLFAVGDEKQSIYSF 229
R K + +L+DE QDT+L+Q E I L K LF VGD KQSIY F
Sbjct: 386 REKFKE----VLVDEYQDTNLLQ-ESILQLL------KRGEEDEGNLFMVGDVKQSIYRF 434
Query: 230 HGAEPKRVLREKRINQKRATNAGQKFSI-IELPLSFRSTADILTVVDKVFS--IPENAQG 286
A+P L EK R G + I+L +FRS ++L + +F + E
Sbjct: 435 RQADPSLFL-EK---YHRFAQEGNEHGKRIDLAENFRSRKEVLDTTNYLFKQLMDEEVGE 490
Query: 287 LSEDSTTTIRHRSSRIGQVGTVQLWEQVVSQHDSQCNPQQESWTSYFDSLPQESSASILA 346
+ D ++ +++ + + + + + ++E + A+++A
Sbjct: 491 IDYDEEAQLKFGNAKYPENPDNKTELLLYEKLAIEEEEEEEIDEEEEILDKAQQEATMVA 550
Query: 347 RRIAYTISNMIGTDTIF-----SNGKKRVIQAKDILVLVRKRKDTPLITFLTRFLKNDYK 401
RI I F G+ R + +DI++L R R + F K
Sbjct: 551 ERIKALI------KEGFKVYDKKTGEYRPVTYRDIVILTRSRGWNL--QIMEEFKKYG-- 600
Query: 402 ISVVGNDRFILTDHLAIKDLMALGRFILSQEDDLSFVCMLKSPLFNFSEDDIFKICTQRH 461
I V ND ++ +++L R I + D+ V +L+SP+ F E+++ I Q
Sbjct: 601 IPVFVNDAENYFQTTEVRVMLSLLRVIDNPYQDIPLVAVLRSPIVGFDEEELALIRLQNK 660
Query: 462 ETETVYEYIQKFANCGISK----FQHVIKYIHELIHIAQFCSPHDFFTLI---------- 507
++ + YE ++ + ++ + ++ L +F H LI
Sbjct: 661 DS-SFYEAVKSYVKAQKLIEDELYEKLKNFLDSLQKWREFARTHSISELIWKIYNDTGYY 719
Query: 508 -----LGAKKGRQQFI-------SRFGNEVIDVLDEFLNFTLRNEQNSYSSLQELISELE 555
L K RQ + ++ L +F+ F R +QE +L
Sbjct: 720 DYVGGLPNGKQRQANLYALYERARQYEKTSFKGLFQFIRFIER--------MQERQKDLA 771
Query: 556 QYPPTIKRAHSANHNEVRIMTVHTAKGLESPVVFLVDTGSQVFSHKHIKKMHIMPSLNDD 615
A N VR+MT+H +KGLE PVVF++ G Q F+ + + ++ LN
Sbjct: 772 S-----AVAVGEAENAVRLMTIHKSKGLEFPVVFVLGMGKQ-FNKQDLNSSYL---LNRQ 822
Query: 616 PGIPIWIPQSKSR---NNIVSDLIKH-LKKSTQEEYNRLLYVGMTRASDQLII 664
G+ I + R ++ IK +K+ E R+LYV +TRA ++LI+
Sbjct: 823 LGLGITYIDPQERLSYPSLPKVAIKQKMKRELLSEEMRVLYVALTRAKEKLIL 875
Score = 35.8 bits (83), Expect = 0.050
Identities = 24/70 (34%), Positives = 33/70 (47%), Gaps = 7/70 (10%)
Query: 861 DIIISGRIDQISISQQNIFIFEYKTHHHVPQEIEHIP-----YTHIAQLSIYEKILKDSY 915
DI++ G ID S+ I +F+YKT H E I Y QL++YEK L++ Y
Sbjct: 1155 DILVQGIIDGYLESEDGIVLFDYKTDHVEGPSFEKINQLKERYR--GQLALYEKALEEIY 1212
Query: 916 PNKSLVCLLI 925
K L
Sbjct: 1213 KKKVKGKYLY 1222
>gnl|CDD|161956 TIGR00609, recB, exodeoxyribonuclease V, beta subunit. All
proteins in this family for which functions are known
are DNA-DNA helicases that are used as part of an
exonuclease-helicase complex (made up of RecBCD
homologs) that function to generate substrates for the
initiation of recombination and recombinational repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 1087
Score = 124 bits (313), Expect = 1e-28
Identities = 135/573 (23%), Positives = 216/573 (37%), Gaps = 93/573 (16%)
Query: 127 LTLAKYLNAHYEEAKKKNCVLDFEDLIINTNDLLKKRD---VSAWIR--YKIDQEINHIL 181
LTL K + ++ KK+ + F+DL+ LK + ++ IR Y I L
Sbjct: 248 LTLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEKLAQAIREQYPI------AL 301
Query: 182 IDEVQDTSLIQWEVIRSLTEDFFVGKNTHSSPRTLFAVGDEKQSIYSFHGAEPKRVLREK 241
IDE QDT Q+ + L +LF +GD KQ+IYSF GA+ L+ K
Sbjct: 302 IDEFQDTDPQQYRIFSKLF--------IAQKTTSLFLIGDPKQAIYSFRGADIFTYLQAK 353
Query: 242 RINQKRATNAGQKFSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIRHRSSR 301
R T L ++RST ++ ++K+FS+ N + H+ +
Sbjct: 354 SKADARYT----------LGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNS 403
Query: 302 IGQVGTVQLWEQVVSQHDSQCNPQQESWTSYFDSLPQESSASILARRIAYTIS-NMIGTD 360
G Q + D +++ A AR IA ++ +G
Sbjct: 404 KG-----SFVINGQEQPPIHFFTTEVESEGVDDY--RQTIAQKCAREIALWLASAALGLA 456
Query: 361 TIFSNGKKRVIQAKDILVLVRKRKDTPLITFLTRFLKNDYKISVVGNDRFILTDHLAIKD 420
+ R ++A DI VLVR RK+ I LK SV +D+ + ++
Sbjct: 457 NFIATFGGRPLRAGDIAVLVRGRKEANQIRKA---LKKAQIPSVYLSDKSSVFATEEAQE 513
Query: 421 LMALGRFILSQEDDLSFVCMLKSPLFNFSEDDIFKICTQRHETETVYEYIQKFANCGISK 480
L+AL +L E++ + L S +F S ++ + E V E +++ +
Sbjct: 514 LLALLEALLEPENEGTLRAALASSIFGLSALELETLNQDEITWERVVEKFREYHD----- 568
Query: 481 FQHVIKYIHELIHIAQFCSPHDFFTLILGAKKGRQQFISRFGNE-------VIDVLDEFL 533
I F L+L G + G + ++L E
Sbjct: 569 ---------IWRKIGVLAM---FQRLMLEKGIGERLLSQPGGERILTNLLHLAELLQEAA 616
Query: 534 NFTLRNEQNSYSSLQELISELEQYPPTIKRAHSANHNEVRIMTVHTAKGLESPVVFLVDT 593
+ RN+ + L++ IS E+ I R S V+I+T+H +KGLE P+VFL
Sbjct: 617 HQ-ERNKLSLLRWLEDQISNEEEEEEEIIRLESDAEL-VKIVTIHKSKGLEYPIVFL--- 671
Query: 594 GSQVFSHKHIKKMHIMPSLND--DPGIPIWIPQSKSRNNIV--SDLIKHLKKSTQE---E 646
P + D Q + + ++ K + E E
Sbjct: 672 ----------------PFITDAKKSNFASLHDQHSHEYQLYDFNQSEENQKLARVERLAE 715
Query: 647 YNRLLYVGMTRASDQLIICKHSNTSNEKKSNQR 679
RLLYV +TRA QL I + K SN
Sbjct: 716 DLRLLYVALTRAKKQLFIGI-APLITSKLSNLA 747
>gnl|CDD|130146 TIGR01074, rep, ATP-dependent DNA helicase Rep. Designed to
identify rep members of the uvrD/rep subfamily.
Length = 664
Score = 95.6 bits (238), Expect = 5e-20
Identities = 121/564 (21%), Positives = 212/564 (37%), Gaps = 150/564 (26%)
Query: 135 AHYEEAKKKNCVLDFEDLIINTNDLLKKRDVSAWIRYKIDQEINHILIDEVQDTSLIQWE 194
A Y+ + LDF+DLI+ LL++ + +R + +I ++L+DE QDT+ Q+E
Sbjct: 168 ALYQAHLRAYNALDFDDLILLPTLLLQQNEE---VRNRWQNKIRYLLVDEYQDTNTSQYE 224
Query: 195 VIRSLTEDFFVGKNTHSSPRTLF-AVGDEKQSIYSFHGAEPK--RVLREKRINQKRATNA 251
+++ L R F VGD+ QSIYS+ GA P+ +L+E K
Sbjct: 225 LVKLLV-----------GDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLK----- 268
Query: 252 GQKFSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIRHRSSRIGQVGTVQLW 311
+I+L ++RST IL + + I N + S +G +++
Sbjct: 269 -----VIKLEQNYRSTGRILKAANIL--IANNPHVFE-------KKLFSELGYGEKIKVI 314
Query: 312 EQVVSQHDSQCNPQQESWTSYFDSLPQESSASILARRIAYTISNMIGTDTIFSNGKKRVI 371
E +H+ A RIA I K
Sbjct: 315 ECNNEEHE--------------------------AERIAGEIIAH------KLVNK---T 339
Query: 372 QAKDILVLVRKRKDTPLITFLTRFLKNDYKISVVGNDRFILTDHLAIKDLMALGRFILSQ 431
Q KD +L R + L+ + YK+S G F IKDL++ R +++
Sbjct: 340 QYKDYAILYRGNHQSRLLEKALMQNRIPYKLS--GGTSFF--SRPEIKDLLSYLRLLVNP 395
Query: 432 EDDLSFVCMLKSP--------------LFNFSEDDIFKICTQ----RHETETVYEYIQKF 473
+DD +F+ ++ +P L +F + + YE +Q+F
Sbjct: 396 DDDAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRF 455
Query: 474 ANCGISKFQHVIKYIHELIHIAQFCSPHDFFTLILGAKKG----RQQFISRFGNE----- 524
++ E+ +A+ P + ++ + S E
Sbjct: 456 -----------TDWLVEIRRLAERSEPIEAVRSLIEDIDYENWLYETSPSPKAAEMRMKN 504
Query: 525 VIDVLDEFLNFTLRNEQNSYSSLQELISELEQYPPTIKRAHSANHNEVRIMTVHTAKGLE 584
V + F +E++ +L ++++ L + ++V++MT+H +KGLE
Sbjct: 505 VNTLFSWFKEMLEGDEEDEPMTLTQVVTRLTLRDMLERGEDEEELDQVQLMTLHASKGLE 564
Query: 585 SPVVFLVDTGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRNNIVSDLIKHLKKSTQ 644
P VF+V + H+ S+ +D N+
Sbjct: 565 FPYVFIVGMEEGILPHQ--------SSIEED--------------NV------------- 589
Query: 645 EEYNRLLYVGMTRASDQL--IICK 666
EE RL YVG+TRA +L +CK
Sbjct: 590 EEERRLAYVGITRAQKELTFTLCK 613
>gnl|CDD|130147 TIGR01075, uvrD, DNA helicase II. Designed to identify uvrD
members of the uvrD/rep subfamily.
Length = 715
Score = 89.5 bits (222), Expect = 4e-18
Identities = 126/548 (22%), Positives = 202/548 (36%), Gaps = 128/548 (23%)
Query: 135 AHYEEAKKKNCVLDFEDLIINTNDLLKKRDVSAWIRYKIDQEINHILIDEVQDTSLIQWE 194
Y+EA + ++DF +L++ ++LL+ + I + HIL+DE QDT+ IQ+
Sbjct: 170 QAYQEACDRAGLVDFAELLLRAHELLRNKPH---ILQHYQERFTHILVDEFQDTNKIQYA 226
Query: 195 VIRSLTEDFFVGKNTHSSPRTLFAVGDEKQSIYSFHGAEPKRVLREKRINQKRATNAGQK 254
IR L G + + VGD+ QSIY + GA+ + N ++
Sbjct: 227 WIRLLA-----GNTGN-----VMIVGDDDQSIYGWRGAQVE--------NIQKFLKDFPG 268
Query: 255 FSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIRHRSSRIGQVGTVQLWEQV 314
I L ++RSTA+IL + I + R+G+ LW
Sbjct: 269 AETIRLEQNYRSTANIL-----------------AAANALIANNDERLGK----NLWT-- 305
Query: 315 VSQHDSQCNPQQESWTSYFDSLPQESSASILARRIAYTISNMIGTDTIF----SNGKKRV 370
D + S + + + A + RI N D SN + RV
Sbjct: 306 ----DGEVGEP----ISLYSAFNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRV 357
Query: 371 IQAKDILVLVRKRKDTPLITFLTRFLKNDYKISVVGNDRFILTDHLAIKDLMALGRFILS 430
++ + P Y+I G RF + IKD +A R I +
Sbjct: 358 LEE------ALLQASIP------------YRI--YGGMRFF--ERQEIKDALAYLRLIAN 395
Query: 431 QEDDLSFVCMLKSPLFNFSE---DDIFKICTQRHET--ETVYEYIQKFANCG--ISKFQH 483
+ DD +F ++ +P + D + + R T + E Q+ G S Q
Sbjct: 396 RNDDAAFERVINTPTRGIGDRTLDVVRQAARDRGLTLWQAARELTQEKVLAGRAASALQR 455
Query: 484 VIKYIHELIHIAQFCSPH---DFFTLILGAKKGRQQFISRFGNEVIDVLDEFLNFTLRNE 540
++ I L + H D G ++ QQ G I+ L+E + T +
Sbjct: 456 FVELIEALANETADMPLHVQTDHVIKDSGLREMYQQEKGEKGQARIENLEELVTATRQFS 515
Query: 541 -QNSYSSLQELISELEQYPPTIKRAHSANHNE-VRIMTVHTAKGLESPVVFLVDTGSQVF 598
+ + L + L + + V++MT+H+AKGLE P+VFLV +F
Sbjct: 516 LPENDEDMTPLTAFLSHAALEAGEGQADAGQDAVQLMTLHSAKGLEFPLVFLVGMEEGMF 575
Query: 599 SHKHIKKMHIMPSLN--DDPGIPIWIPQSKSRNNIVSDLIKHLKKSTQEEYNRLLYVGMT 656
PS D+ G EE RL YVG+T
Sbjct: 576 -----------PSQMSLDEGG-------------------------RLEEERRLAYVGIT 599
Query: 657 RASDQLII 664
RA +L I
Sbjct: 600 RAMQKLTI 607
>gnl|CDD|184388 PRK13909, PRK13909, putative recombination protein RecB;
Provisional.
Length = 910
Score = 85.0 bits (211), Expect = 8e-17
Identities = 59/188 (31%), Positives = 96/188 (51%), Gaps = 18/188 (9%)
Query: 97 KEKLKKSQDEFIKIRDRFNTY-----KMFKSTLASLTLAKYLNAHYEEAKKKNCVLDFED 151
K ++ EF ++++ Y S L L L Y A E KKKN LDF+D
Sbjct: 245 KLYNEELDAEFEELKNALKRYYDAKENYKLSKLFKL-LQLYKEAKNELNKKKN-ALDFDD 302
Query: 152 LIINTNDLLKKRDVSA-WIRYKIDQEINHILIDEVQDTSLIQWEVIRSLTEDFFVGKNTH 210
+ +LL + ++ ++ +++D +I+HILIDE QDTS++Q++++ L ++ G+
Sbjct: 303 ISKKVYELLGEEEIDKDFLYFRLDSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQ- 361
Query: 211 SSPRTLFAVGDEKQSIYSFHGAEPKRVLREKRINQKRATNAGQKFSIIELPLSFRSTADI 270
R+ F VGD KQSIY F G K+ L +K K + L ++RS I
Sbjct: 362 KKFRSFFYVGDVKQSIYRFRGG--KKELFDKVSKD-------FKQKVDNLDTNYRSAPLI 412
Query: 271 LTVVDKVF 278
+ V++VF
Sbjct: 413 VDFVNEVF 420
Score = 83.1 bits (206), Expect = 4e-16
Identities = 101/527 (19%), Positives = 178/527 (33%), Gaps = 130/527 (24%)
Query: 450 EDDIFKICTQRHETETVYEYIQKF--------ANCGISKFQHV------IKYIH--ELIH 493
DDI +C + + E++Q+ ++ + V +KY E I+
Sbjct: 471 PDDIAILCWTNDDALEIKEFLQEQFGIKAVTESSAKLINQPEVKALIEALKYCLFGEEIY 530
Query: 494 IAQFCS----PHDFFTLILGAKKGRQQFISRFGNEVIDVLDEFLNFTLR--NEQNSYSSL 547
D L ++ +F+ + +I+ L + L+ + Y +
Sbjct: 531 KHNVLKLLGKEPDKIPSFLPKEESVAEFVKK----LIEELKLYDENLLKFLELASGYEDI 586
Query: 548 QELISELEQYPPTIKRAHSANHNEVRIMTVHTAKGLESPVVFLVD------TGSQVFSHK 601
+E + +LE K S V+IMTVH +KGLE V + D + S
Sbjct: 587 EEFLFKLEPCD---KEIASEESKGVQIMTVHKSKGLEFEHVIVCDRLGKPNSDSSNL--- 640
Query: 602 HIKKMHIMPSLNDDPGIPIWIPQS--KSRNNIVSD----LIKHLKKSTQEEYNRLLYVGM 655
L + GI +W K R N D L K +EE N +LYV
Sbjct: 641 ----------LFEYDGIELWQIYYRIKGRENFDKDYARALEKEKALKYEEEIN-VLYVAF 689
Query: 656 TRASDQLIICKHSNTSNEKKSNQRTWYDMVYDSFHNDERVKKIKLTNSINKDEWIAYEWS 715
TRA + LI+ K +S + + L
Sbjct: 690 TRAKNSLIVVKKDESSG--------------------SMFEILDL--------------- 714
Query: 716 THHPENTPLEREETIKQLMDEQKIPKKLFSPIKNDINEPYILNPSTIDTKGKTNLESLLS 775
PLER E I + SP K + L P + K E
Sbjct: 715 ------KPLERGEIE--------IKEPKISPKKESLITSVKLKPHGYQEQVKEIEEEPKE 760
Query: 776 DNQTFNR--GLIIHKLLQVIFTLPEHKRKNFITSYCTKNAKLWPAKEYKNLLLSITRLLE 833
DN G+ +H L++++ + + + ++L + L+
Sbjct: 761 DNDLEAIYFGIALHYCLEMLYAFKIENLEVLKNLLKNRYGHFLDESDLEDLEKRLELLIN 820
Query: 834 NPM---MTTAMSCDSYSEVSVS--GKINCPKKDIIISGRIDQISISQQNIFIFEYKTHHH 888
N + E ++ G++ +ID + + I + +YK+
Sbjct: 821 NKEFQALLKDGKL--LKEQALLFNGEL----------KQIDLLLEKDEEICVIDYKSSKK 868
Query: 889 VPQEIEHIPYTHIAQLSIYEKILKDSYPNKSLVCLLIYVSEPKVFII 935
+E H AQ+S Y++ +K+ P K + ++Y+ E K+ I+
Sbjct: 869 YQEE-------HKAQVSHYKEAIKEILPKKKVEAYIVYLLEDKIEIL 908
>gnl|CDD|183307 PRK11773, uvrD, DNA-dependent helicase II; Provisional.
Length = 721
Score = 64.9 bits (159), Expect = 8e-11
Identities = 50/177 (28%), Positives = 80/177 (45%), Gaps = 46/177 (25%)
Query: 137 YEEAKKKNCVLDFEDLIINTNDL-LKKRDVSAWIRYKIDQEINHILIDEVQDTSLIQWEV 195
Y+EA + ++DF +L++ ++L L K + Y+ + HIL+DE QDT+ IQ+
Sbjct: 177 YQEACDRAGLVDFAELLLRAHELWLNKPHILQ--HYQ--ERFTHILVDEFQDTNAIQYAW 232
Query: 196 IRSLTEDFFVGKNTHSSPRTLFAVGDEKQSIYSFHGAEPKRVLREKRI-NQKRATNAGQK 254
IR L G + VGD+ QSIY + GA ++ N +R N
Sbjct: 233 IRLLA-----GDTGK-----VMIVGDDDQSIYGWRGA---------QVENIQRFLNDFPG 273
Query: 255 FSIIELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIRHRSSRIGQVGTVQLW 311
I L ++RSTA+IL A + I + + R+G+ +LW
Sbjct: 274 AETIRLEQNYRSTANIL-----------KA------ANALIANNNGRLGK----ELW 309
Score = 56.4 bits (137), Expect = 3e-08
Identities = 30/94 (31%), Positives = 43/94 (45%), Gaps = 34/94 (36%)
Query: 572 VRIMTVHTAKGLESPVVFLVDTGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRNNI 631
V++MT+H+AKGLE P+VF+V +F +M SL ++ G
Sbjct: 554 VQLMTLHSAKGLEFPLVFIVGMEEGLFPS----QM----SL-EEGG-------------- 590
Query: 632 VSDLIKHLKKSTQEEYNRLLYVGMTRASDQLIIC 665
L EE RL YVG+TRA +L +
Sbjct: 591 ------RL-----EEERRLAYVGITRAMQKLTLT 613
>gnl|CDD|182838 PRK10919, PRK10919, ATP-dependent DNA helicase Rep; Provisional.
Length = 672
Score = 62.2 bits (151), Expect = 6e-10
Identities = 45/137 (32%), Positives = 71/137 (51%), Gaps = 25/137 (18%)
Query: 137 YEEAKKKNCVLDFEDLIINTNDLLKKRDVSAWIRYKIDQEINHILIDEVQDTSLIQWEVI 196
Y+ K VLDF+DLI+ LL++ + +R + +I ++L+DE QDT+ Q+E++
Sbjct: 171 YDAHLKACNVLDFDDLILLPTLLLQRNEE---VRERWQNKIRYLLVDEYQDTNTSQYELV 227
Query: 197 RSLTEDFFVGKNTHSSPRTLFAV-GDEKQSIYSFHGAEPKR-VLREKRINQKRATNAGQK 254
+ L VG R F V GD+ QSIYS+ GA P+ VL +
Sbjct: 228 KLL-----VG------SRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPA--------- 267
Query: 255 FSIIELPLSFRSTADIL 271
+I+L ++RS+ IL
Sbjct: 268 LQVIKLEQNYRSSGRIL 284
Score = 41.7 bits (98), Expect = 0.001
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 37/99 (37%)
Query: 570 NEVRIMTVHTAKGLESPVVFLVDTGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRN 629
++V++MT+H +KGLE P V+LV + H+ S +
Sbjct: 550 DQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQ----------------------SSIDED 587
Query: 630 NIVSDLIKHLKKSTQEEYNRLLYVGMTRASDQLI--ICK 666
NI +E RL YVG+TRA +L +CK
Sbjct: 588 NI-------------DEERRLAYVGITRAQKELTFTLCK 613
>gnl|CDD|182930 PRK11054, helD, DNA helicase IV; Provisional.
Length = 684
Score = 60.7 bits (148), Expect = 1e-09
Identities = 45/139 (32%), Positives = 66/139 (47%), Gaps = 32/139 (23%)
Query: 101 KKSQDEFIK-----IRDRFNTYKMFKSTLASLTLAKYLNAHYEEAKKKNCVLDFEDLIIN 155
SQ E I +RD F L +A L A +++A K +DF LI
Sbjct: 367 GGSQAEMIAQAPEEVRDLFQ------KRLK--LMAPLLKA-WKKALKAENAVDFSGLIHQ 417
Query: 156 TNDLLKK-RDVSAWIRYKIDQEINHILIDEVQDTSLIQWEVIRSLTEDFFVGKNTHSSPR 214
+ L+K R +S W HIL+DE QD S + ++ +L + +N+ +
Sbjct: 418 AVNYLEKGRFISPW---------KHILVDEFQDISPQRAALLAALRK-----QNSQT--- 460
Query: 215 TLFAVGDEKQSIYSFHGAE 233
TLFAVGD+ Q+IY F GA+
Sbjct: 461 TLFAVGDDWQAIYRFSGAD 479
Score = 29.1 bits (66), Expect = 6.0
Identities = 21/96 (21%), Positives = 39/96 (40%), Gaps = 28/96 (29%)
Query: 575 MTVHTAKGLESPVVFLV--DTGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRNNIV 632
MT+H +KG ++ V ++ G F P + +R +I+
Sbjct: 592 MTIHASKGQQADYVIILGLQEGQDGF------------------------P-APARESIM 626
Query: 633 SD-LIKHLKKSTQEEYNRLLYVGMTRASDQLIICKH 667
+ L+ + E RLLYV +TRA ++ + +
Sbjct: 627 EEALLPPPEDFPDAEERRLLYVALTRAKHRVWLLFN 662
>gnl|CDD|182801 PRK10876, recB, exonuclease V subunit beta; Provisional.
Length = 1181
Score = 38.8 bits (91), Expect = 0.006
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 10/54 (18%)
Query: 181 LIDEVQDTSLIQWEVIRSLTEDFFVGKNTHSSPRT-LFAVGDEKQSIYSFHGAE 233
+IDE QDT Q+ + R + + + P T L +GD KQ+IY+F GA+
Sbjct: 382 MIDEFQDTDPQQYRIFRRI----YRHQ-----PETALLLIGDPKQAIYAFRGAD 426
Score = 33.0 bits (76), Expect = 0.41
Identities = 11/19 (57%), Positives = 17/19 (89%)
Query: 572 VRIMTVHTAKGLESPVVFL 590
V+I+T+H +KGLE P+V+L
Sbjct: 736 VQIVTIHKSKGLEYPLVWL 754
Score = 30.7 bits (70), Expect = 1.8
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 366 GKKRVIQAKDILVLVRKRKDTPLI 389
R ++A DI VLVR R++ LI
Sbjct: 544 DDSRPVRASDITVLVRSRQEAALI 567
>gnl|CDD|163010 TIGR02773, addB_Gpos, ATP-dependent nuclease subunit B. DNA repair
is accomplished by several different systems in
prokaryotes. Recombinational repair of double-stranded
DNA breaks involves the RecBCD pathway in some lineages,
and AddAB (also called RexAB) in other. The AddA protein
is conserved between the firmicutes and the
alphaproteobacteria, while the partner protein is not.
Nevertheless, the partner is designated AddB in both
systems. This model describes the AddB protein as found
Bacillus subtilis and related species. Although the RexB
protein of Streptococcus and Lactococcus is considered
to be orthologous, functionally equivalent, and merely
named differently, all members of this protein family
have a P-loop nucleotide binding motif GxxGxGK[ST] at
the N-terminus, unlike RexB proteins, and a CxxCxxxxxC
motif at the C-terminus, both of which may be relevant
to function.
Length = 1158
Score = 33.6 bits (77), Expect = 0.27
Identities = 36/151 (23%), Positives = 63/151 (41%), Gaps = 34/151 (22%)
Query: 523 NEVIDVLDEFLNFTLRNEQNSYSSLQELISE-LEQY-----PPTIKRAHSANHNEVRIMT 576
+ VI +LDE + L NE+ + QE+I LEQ PP + ++V + T
Sbjct: 536 DAVIQLLDEMVE-VLGNEEMDLNRFQEVIDIGLEQLEFSLIPPAL--------DQVSVGT 586
Query: 577 VHTAKGLESPVVFLVDTGSQVFSHKHIKKMHIMPSLNDDPGIPIWIPQSKSRNNIVSDLI 636
+ AK + V++L+ V MP+ + + GI S ++
Sbjct: 587 MDRAKSDNTKVIYLLGMNDGV-----------MPARSKEEGI-----LSDEERELLEQQG 630
Query: 637 KHLKKSTQE---EYNRLLYVGMTRASDQLII 664
L +++ + L+Y T AS++L I
Sbjct: 631 VELSPTSKIKIFDEQFLVYTAFTSASERLKI 661
>gnl|CDD|178464 PLN02876, PLN02876, acyl-CoA dehydrogenase.
Length = 822
Score = 30.5 bits (69), Expect = 2.2
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 19/69 (27%)
Query: 754 PYILNPSTIDTKGKTNLESLLSDNQTFNRGLIIHKLLQVIFTLPEHKRKNFITSYCTKNA 813
PYI++ + DNQ +G + + I +LPE ++ YC+ +
Sbjct: 270 PYIVDINL--------------DNQQVGKGFEFTGIPEGIPSLPE-----YLAEYCSASG 310
Query: 814 KLWPAKEYK 822
K WPA +K
Sbjct: 311 KPWPAANWK 319
>gnl|CDD|163362 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial. This
model describes bacterial (and mitochondrial and
chloroplast) class of ribosomal protein L3. A separate
model describes the archaeal form, where both belong to
Pfam family pfam00297. The name is phrased to meet the
needs of bacterial genome annotation. Organellar forms
typically will have transit peptides, N-terminal to the
region modeled here.
Length = 202
Score = 30.1 bits (69), Expect = 2.5
Identities = 17/59 (28%), Positives = 21/59 (35%), Gaps = 16/59 (27%)
Query: 230 HGAEPKRVLREKRINQKRATNAGQKFSIIELPLSFRSTADILTVVDKVFSIPENAQGLS 288
G EPKR LRE R++ G + T DI KV + G S
Sbjct: 69 AGVEPKRHLREFRVDDLEGYEVGDEI-----------TVDIFEAGQKV-----DVTGTS 111
>gnl|CDD|148561 pfam07007, DUF1311, Protein of unknown function (DUF1311). This
family consists of several bacterial proteins of around
120 residues in length. Members of this family contain
four highly conserved cysteine residues. The function of
this family is unknown.
Length = 92
Score = 29.8 bits (67), Expect = 3.3
Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 3/54 (5%)
Query: 89 INKKSPDLKEKLKKSQDEFIKIRDR---FNTYKMFKSTLASLTLAKYLNAHYEE 139
+ D + L+ +Q ++K RD F ++A L A L E
Sbjct: 34 LAALPADARAALRAAQRAWLKYRDAECDFEASLYGGGSIAPLAYAACLARLTRE 87
>gnl|CDD|107069 PHA01756, PHA01756, hypothetical protein.
Length = 268
Score = 29.6 bits (66), Expect = 4.0
Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 17/89 (19%)
Query: 826 LSITRLLEN-----PMMTTAMSCDSYSEVSVSGKINCPKKD-IIISG-------RIDQIS 872
++L+N P +A++ EV VSG+ ++D I I+G +I+QI
Sbjct: 40 NIDRKILQNGNLYIPNNISALTGFFQKEVYVSGQPVLTEQDPIYIAGFIGTANQQINQIL 99
Query: 873 ISQQNIFIFEYKTHHHVPQEIEHIPYTHI 901
S Q + Y + ++P+EI + Y ++
Sbjct: 100 YSNQQL----YYSISNLPKEISYDLYVNL 124
>gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 29.2 bits (66), Expect = 5.6
Identities = 13/49 (26%), Positives = 22/49 (44%)
Query: 67 SLLSSFFLTQKFTPQKNIITQEINKKSPDLKEKLKKSQDEFIKIRDRFN 115
LL F L+++F+ +II ++ DL +L E +I N
Sbjct: 203 GLLLIFLLSRRFSANVDIIKDGLSTLENDLSTRLPPLPGELGEISQAIN 251
>gnl|CDD|149383 pfam08302, tRNA_lig_CPD, Fungal tRNA ligase phosphodiesterase
domain. This domain is found in fungal tRNA ligases and
has cyclic phosphodiesterase activity. tRNA ligases are
enzymes required for the splicing of precursor tRNA
molecules containing introns.
Length = 255
Score = 28.8 bits (65), Expect = 7.1
Identities = 16/103 (15%), Positives = 34/103 (33%), Gaps = 19/103 (18%)
Query: 258 IELPLSFRSTADILTVVDKVFSIPENAQGLSEDSTTTIR-----------HRSSRIGQVG 306
I L T ++L++++ +F + R HR+S +
Sbjct: 74 ISLD-----TKEVLSLLESLFESASPEKARLYLQLKNSRRVQPEFHVTLIHRASAKTRPE 128
Query: 307 TVQLWEQVVSQHDSQCNPQQESWTSYFDSLPQESSASILARRI 349
+W+ + + ++S S P SA + R+
Sbjct: 129 QKDIWDNYLDLYI---EYLKKSPKSKPTETPTLGSADVRLERL 168
>gnl|CDD|150740 pfam10100, DUF2338, Uncharacterized protein conserved in bacteria
(DUF2338). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 429
Score = 28.5 bits (64), Expect = 8.3
Identities = 20/86 (23%), Positives = 33/86 (38%), Gaps = 16/86 (18%)
Query: 16 IYKD---LWPLPYFQVSD---------INKYVSLSMETGNPTILKKAQTLQQASQTQCIE 63
+Y D LW +P + D I K + ++M PTI + Q + A +
Sbjct: 344 VYIDENGLWHIPRMPLEDYYRLAIIQAIAKALDVAM----PTIDQLLQRYEAALKQFIDS 399
Query: 64 ERFSLLSSFFLTQKFTPQKNIITQEI 89
LS FL F +I +++
Sbjct: 400 HGDKQLSPSFLVDDFDQDAALICKQL 425
>gnl|CDD|151592 pfam11149, DUF2924, Protein of unknown function (DUF2924). This
bacterial family of proteins has no known function.
Length = 136
Score = 28.4 bits (64), Expect = 8.5
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 326 QESWTSYFDSLPQESSASILARRIAYTI 353
+ W F S P + + L RR+AY I
Sbjct: 17 RARWRDLFGSEPPPHNRTFLERRLAYRI 44
>gnl|CDD|178023 PLN02401, PLN02401, diacylglycerol o-acyltransferase.
Length = 446
Score = 28.2 bits (63), Expect = 9.6
Identities = 11/21 (52%), Positives = 17/21 (80%), Gaps = 1/21 (4%)
Query: 387 PLITFLTRFLKNDYKISVVGN 407
PL+ F+T +L+N +K S+VGN
Sbjct: 397 PLV-FITNYLQNKFKSSMVGN 416
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
0.319 0.134 0.385
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 15,091,514
Number of extensions: 976768
Number of successful extensions: 1984
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1945
Number of HSP's successfully gapped: 58
Length of query: 952
Length of database: 5,994,473
Length adjustment: 103
Effective length of query: 849
Effective length of database: 3,768,849
Effective search space: 3199752801
Effective search space used: 3199752801
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)