RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780834|ref|YP_003065247.1| DNA primase [Candidatus
Liberibacter asiaticus str. psy62]
(648 letters)
>gnl|CDD|30707 COG0358, DnaG, DNA primase (bacterial type) [DNA replication,
recombination, and repair].
Length = 568
Score = 358 bits (919), Expect = 3e-99
Identities = 204/604 (33%), Positives = 294/604 (48%), Gaps = 53/604 (8%)
Query: 3 YPRDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKGFY 62
PR+FI +L I I ++IG+YV K +Y CPFH EKTPSF + KGFY
Sbjct: 2 IPREFIDELRERIDIVDVIGEYV-----KLKKQGANYTGLCPFHAEKTPSFTVSPEKGFY 56
Query: 63 YCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLPVVDPKIEKKEKIQTDLIRLIE 122
+CF C GD + FL LLG SF E+V +LA AG+ LP K +K + L E
Sbjct: 57 HCFGCGAGGDAIKFLMELLGLSFDEAVLQLAGRAGIELPYEKGKRIEKRQ---KLYDGKE 113
Query: 123 VATDFFHHSLKNARDKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQKGFSEEK 182
A F+ SL L YL+ RG+ + I F+LGYAP + SL L +K + EEK
Sbjct: 114 EAAIFYQSSLDPEGAAAL-KYLETRGLAAELIAHFRLGYAPPND-SLLPFLAKKEYREEK 171
Query: 183 IIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNSPETILF 242
+ + GLL + YDRFRNR++FPIR RG VI FGGR L + KYLNSPET LF
Sbjct: 172 LEDLGLLKRKEG--KIYDRFRNRIMFPIRDLRGDVIGFGGRVLGDDKP-KYLNSPETELF 228
Query: 243 HKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAGVQNVVSSLGTAL 302
KG+ LY A + K + II+VEGYMDV++L +AG++N V+SLGTAL
Sbjct: 229 KKGEELYGLDPARKKIAK----------ADQIIVVEGYMDVIALHKAGIKNAVASLGTAL 278
Query: 303 TEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSRGEDPDSF 362
TE ++LL + +++LCFDGD G +AA +A+ LVL G V +LL G+DPD
Sbjct: 279 TEEHIKLLSRGKKKVILCFDGDRAGRKAAKRALQLVLPLDFVG--VFVILLPDGKDPDEL 336
Query: 363 IRCYGKTAFEKLI-VESLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKDQKLR 421
IR G A K + E LPL++ L + + + +A L I I D+ LR
Sbjct: 337 IRKEGAEALRKKLPNERLPLIEFLIEYLIPSNLDT--EGKARLVEEAVPLIKVIPDEVLR 394
Query: 422 YYYSQAIRDRLQQLFQK-YITEHSGYGRYWKKNARHRDQKGPSQRLMQSSLVKGKLSKKP 480
YY Q + + L + + + + + L+Q+ ++ K
Sbjct: 395 DYYLQKLAELLGISDDALLQLQVQPEKKATQSPFKQNPGRIAIALLVQNPVLAPKQPILK 454
Query: 481 SLREAALLLTLINHPAILQEQYQELADIRYDNNELQKLWSFLFSDFVEQKYFLPEEIHQR 540
+L E LL L+ +L+ D R+ + Q L+ L + V
Sbjct: 455 ALLERPLLKLLLFEELLLELFGTPEIDARFLDELFQSLFEVLLEELV------------- 501
Query: 541 LCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFRLLSRQKEEIEK 600
ELL + A ++ I +++ QAL + + +++K + K
Sbjct: 502 -------ELLDINLLVSKAAIVFDGV----ITLLQRLLDQALEKGLKNLIGAKKKSGLNK 550
Query: 601 QIAQ 604
+ +
Sbjct: 551 KPKE 554
>gnl|CDD|110780 pfam01807, zf-CHC2, CHC2 zinc finger. This domain is principally
involved in DNA binding in DNA primases.
Length = 98
Score = 115 bits (290), Expect = 5e-26
Identities = 44/99 (44%), Positives = 59/99 (59%), Gaps = 5/99 (5%)
Query: 3 YPRDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKGFY 62
P + I DL I I ++IGQYV ++ + Y CPFHDEKTPSF + K FY
Sbjct: 1 IPEESIDDLKNRIDIVDIIGQYVKLKKKGRD-----YKGLCPFHDEKTPSFSVSPDKQFY 55
Query: 63 YCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLP 101
+CF C GD +SFL + SF+E+V++LA AG+ LP
Sbjct: 56 HCFGCGAGGDAISFLMKIDKLSFVEAVKKLADRAGIDLP 94
>gnl|CDD|173784 cd03364, TOPRIM_DnaG_primases, TOPRIM_DnaG_primases: The
topoisomerase-primase (TORPIM) nucleotidyl
transferase/hydrolase domain found in the active site
regions of proteins similar to Escherichia coli DnaG.
Primases synthesize RNA primers for the initiation of
DNA replication. DnaG type primases are often closely
associated with DNA helicases in primosome assemblies.
The TOPRIM domain has two conserved motifs, one of which
centers at a conserved glutamate and the other one at
two conserved aspartates (DxD). This glutamate and two
aspartates, cluster together to form a highly acid
surface patch. The conserved glutamate may act as a
general base in nucleotide polymerization by primases.
The DXD motif may co-ordinate Mg2+, a cofactor required
for full catalytic function. E. coli DnaG is a single
subunit enzyme.
Length = 79
Score = 113 bits (285), Expect = 2e-25
Identities = 42/80 (52%), Positives = 59/80 (73%), Gaps = 3/80 (3%)
Query: 274 IILVEGYMDVLSLCQAGVQNVVSSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYK 333
+ILVEGYMDV++L QAG++NVV+SLGTALTE Q LL +L+ ++L FDGD+ G +AA +
Sbjct: 3 VILVEGYMDVIALHQAGIKNVVASLGTALTEEQAELLKRLAKEVILAFDGDEAGQKAALR 62
Query: 334 AIDLVLCHLIPGNRVNFVLL 353
A++L+L G V + L
Sbjct: 63 ALELLLKL---GLNVRVLTL 79
>gnl|CDD|173779 cd01029, TOPRIM_primases, TOPRIM_primases: The
topoisomerase-primase (TORPIM) nucleotidyl
transferase/hydrolase domain found in the active site
regions of bacterial DnaG-type primases and their
homologs. Primases synthesize RNA primers for the
initiation of DNA replication. DnaG type primases are
often closely associated with DNA helicases in primosome
assemblies. The TOPRIM domain has two conserved motifs,
one of which centers at a conserved glutamate and the
other one at two conserved aspartates (DxD). This
glutamate and two aspartates, cluster together to form a
highly acid surface patch. The conserved glutamate may
act as a general base in nucleotide polymerization by
primases. The DXD motif may co-ordinate Mg2+, a cofactor
required for full catalytic function. The prototypical
bacterial primase. Escherichia coli DnaG is a single
subunit enzyme.
Length = 79
Score = 100 bits (251), Expect = 1e-21
Identities = 37/66 (56%), Positives = 54/66 (81%)
Query: 274 IILVEGYMDVLSLCQAGVQNVVSSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYK 333
+I+VEGYMDVL+L QAG++NVV++LGTA TE QLRLL + + ++L FD D+ G +AA +
Sbjct: 3 VIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFARTVILAFDNDEAGKKAAAR 62
Query: 334 AIDLVL 339
A++L+L
Sbjct: 63 ALELLL 68
>gnl|CDD|173773 cd00188, TOPRIM, Topoisomerase-primase domain. This is a
nucleotidyl transferase/hydrolase domain found in type
IA, type IIA and type IIB topoisomerases, bacterial
DnaG-type primases, small primase-like proteins from
bacteria and archaea, OLD family nucleases from
bacterial and archaea, and bacterial DNA repair proteins
of the RecR/M family. This domain has two conserved
motifs, one of which centers at a conserved glutamate
and the other one at two conserved aspartates (DxD).
This glutamate and two aspartates, cluster together to
form a highly acid surface patch. The conserved
glutamate may act as a general base in nucleotide
polymerization by primases and in strand joining in
topoisomerases and, as a general acid in strand cleavage
by topisomerases and nucleases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full catalytic
function.
Length = 83
Score = 65.5 bits (160), Expect = 5e-11
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 272 SFIILVEGYMDVLSLCQAGV--QNVVSSLGTAL--TEYQLRLLWKLSPRIVLCFDGDDPG 327
+I+VEG D L+L QAG VV+ G AL T L+ L + +++ D D G
Sbjct: 1 KKLIIVEGPSDALALAQAGGYGGAVVALGGHALNKTRELLKRLLGEAKEVIIATDADREG 60
Query: 328 LRAAYKAIDLVLCHLIP 344
A + ++L+
Sbjct: 61 EAIALRLLELLKSLGKK 77
>gnl|CDD|145089 pfam01751, Toprim, Toprim domain. This is a conserved region from
DNA primase. This corresponds to the Toprim domain
common to DnaG primases, topoisomerases, OLD family
nucleases and RecR proteins. Both DnaG motifs IV and V
are present in the alignment, the DxD (V) motif may be
involved in Mg2+ binding and mutations to the conserved
glutamate (IV) completely abolish DnaG type primase
activity. DNA primase EC:2.7.7.6 is a
nucleotidyltransferase it synthesizes the
oligoribonucleotide primers required for DNA replication
on the lagging strand of the replication fork; it can
also prime the leading stand and has been implicated in
cell division. This family also includes the atypical
archaeal A subunit from type II DNA topoisomerases. Type
II DNA topoisomerases catalyse the relaxation of DNA
supercoiling by causing transient double strand breaks.
Length = 89
Score = 56.5 bits (137), Expect = 2e-08
Identities = 29/88 (32%), Positives = 46/88 (52%), Gaps = 9/88 (10%)
Query: 272 SFIILVEGYMDVLSLCQAGV--QNVVSSLGTA-----LTEYQLRLLWKLSPR--IVLCFD 322
+I+VEG D ++L +AG NVV+ LG LT+ QL+LL KL+ + ++L D
Sbjct: 1 KVLIIVEGPSDAIALAKAGGYKGNVVALLGHLSDVIPLTKEQLKLLKKLAKKDEVILATD 60
Query: 323 GDDPGLRAAYKAIDLVLCHLIPGNRVNF 350
D G A+K ++L+ R+
Sbjct: 61 PDREGEAIAWKLLELLKPLGKKVRRIFL 88
>gnl|CDD|173777 cd01027, TOPRIM_RNase_M5_like, TOPRIM_ RNase M5_like: The
topoisomerase-primase (TOPRIM) nucleotidyl
transferase/hydrolase domain found in Ribonuclease M5:
(RNase M5) and other small primase-like proteins from
bacteria and archaea. RNase M5 catalyzes the maturation
of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM
domain has two conserved motifs, one of which centers at
a conserved glutamate and the other one at two conserved
aspartates (DxD). The conserved glutamate may act as a
general base in nucleotide polymerization by primases.
The DXD motif may co-ordinate Mg2+, a cofactor required
for full catalytic function.
Length = 81
Score = 34.2 bits (79), Expect = 0.12
Identities = 18/78 (23%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 274 IILVEGYMDVLSLCQAGVQ-NVVSSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAY 332
+I+VEG D SL + G++ ++ + G+ + + + L+ K +++ D D G +
Sbjct: 4 VIIVEGKNDTESLKKLGIEAEIIETNGSIINKETIELIKKAYRGVIILTDPDRKGEKIR- 62
Query: 333 KAIDLVLCHLIPGNRVNF 350
K + L +P + F
Sbjct: 63 KKLSEYLSGPVPEIKRAF 80
>gnl|CDD|38180 KOG2969, KOG2969, KOG2969, Uncharacterized conserved protein
[Function unknown].
Length = 264
Score = 30.1 bits (67), Expect = 1.7
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 129 HHSLKNARDKRLHYYLDERGIDSHAIEMFKL-GYAPDSRYSLREHLRQKGFSEEKIIEAG 187
+H L K +H L RG +S E K+ G + E + + GFSE+ I+E G
Sbjct: 14 NHGLHICHSKPIHIALGRRGKESENYETLKISGKKALIAENALEFVPEHGFSEDAIVEGG 73
>gnl|CDD|37053 KOG1842, KOG1842, KOG1842, FYVE finger-containing protein [General
function prediction only].
Length = 505
Score = 30.0 bits (67), Expect = 2.0
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 591 LSRQKEEIEKQIAQVTAKGEAEKTAILISILHEVHIQIHQIESQ 634
L Q IE I Q AK + E+ L S L E+H +IH I+ +
Sbjct: 453 LYEQIFLIESFIEQAKAKRKFEEVETLESNLRELHEEIHSIQEK 496
>gnl|CDD|29626 cd01420, MoaC_PE, MoaC family, prokaryotic and eukaryotic. Members
of this family are involved in molybdenum cofactor
(Moco) biosynthesis, an essential cofactor of a diverse
group of redox enzymes. MoaC, a small hexameric protein,
converts, together with MoaA, a guanosine derivative to
the precursor Z by inserting the carbon-8 of the purine
between the 2' and 3' ribose carbon atoms, which is the
first of three phases of Moco biosynthesis..
Length = 140
Score = 29.8 bits (67), Expect = 2.5
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 10/69 (14%)
Query: 327 GLRAAYKAIDLV-LCHLIP--GNRVNFVLLS--RGEDPDSFIRCYGKTAFE-----KLIV 376
G+ AA + +L+ LCH +P G V+F L G ++ +R G+T E + V
Sbjct: 48 GIMAAKRTSELIPLCHPLPLTGVDVDFELDEETSGVRIEATVRTTGRTGVEMEALTAVSV 107
Query: 377 ESLPLVDML 385
+L + DM
Sbjct: 108 AALTIYDMC 116
>gnl|CDD|39340 KOG4137, KOG4137, KOG4137, Uncharacterized conserved protein
[Function unknown].
Length = 102
Score = 29.6 bits (66), Expect = 2.5
Identities = 23/84 (27%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 449 YWKKNARHRDQKGPSQRLMQSSLVKGKLSKKPSLREAALLLTLINHPAILQEQYQELADI 508
KN R + K QRL++ + PS++ A + PA + L
Sbjct: 13 RRGKNMRQKILKELLQRLIEKKHTYFSIEAPPSVKPAKKYCDVTGLPAPYTDPNTGL--- 69
Query: 509 RYDNNELQKLWSFLFSDFVEQKYF 532
RY N E+ KL + SD Q+Y
Sbjct: 70 RYHNAEIYKLICEMPSD-RVQEYL 92
>gnl|CDD|36427 KOG1213, KOG1213, KOG1213, Sister chromatid cohesion complex
Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell
division, chromosome partitioning].
Length = 614
Score = 29.6 bits (66), Expect = 2.8
Identities = 18/142 (12%), Positives = 38/142 (26%), Gaps = 5/142 (3%)
Query: 378 SLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKDQKLRYYYSQAIRDRLQQLFQ 437
S + + + T N +++ + + D +
Sbjct: 466 SQDNILIPKEVPTPNPEPPLSSPFRGPGFTVESNEWESTPYGDEFPMAAEKADLEGEEGL 525
Query: 438 KYITEHSGYGRYWKKNARHRDQK-----GPSQRLMQSSLVKGKLSKKPSLREAALLLTLI 492
+ R K + ++ S L+ ++K + R+ LL L
Sbjct: 526 SPGGTETQEERELAKRTEQILTSIQLEPETNGQIELSELLPNGPNRKQAARKFFSLLVLK 585
Query: 493 NHPAILQEQYQELADIRYDNNE 514
AI +Q + DI
Sbjct: 586 TRQAIEVKQDEPYGDIIITPGP 607
>gnl|CDD|144112 pfam00396, Granulin, Granulin.
Length = 43
Score = 29.2 bits (66), Expect = 3.9
Identities = 9/36 (25%), Positives = 11/36 (30%), Gaps = 11/36 (30%)
Query: 40 WACCPFH------DEKT--PS-FHCNDSKGFYYCFS 66
W CCP D P + C+ G C
Sbjct: 10 WGCCPLPQAVCCSDGLHCCPQGYTCDLDAG--TCVK 43
>gnl|CDD|35533 KOG0312, KOG0312, KOG0312, Uncharacterized conserved protein
[Function unknown].
Length = 563
Score = 29.0 bits (64), Expect = 4.1
Identities = 29/138 (21%), Positives = 52/138 (37%), Gaps = 24/138 (17%)
Query: 389 ETENRSFNTPDERAELEIHLKNCINHIKDQKLRYYYSQAIRDRLQQ-LFQKYITEHSG-- 445
E+ R+ +R +E +K I+ RY + +RDR+ + K E SG
Sbjct: 400 ESLERTMQQQTQR-VMEWKVK-----IRSDGTRYITKRPVRDRILKERALKVFEERSGMT 453
Query: 446 ----------YGRYWKKNARHRDQKGP-SQRLMQSSLVKGKLSK-KPSLREAALLLTLIN 493
GRYW K R + QR + +++ +L K S ++ N
Sbjct: 454 TDDDAMSEMKMGRYWSKEERKQHLVAAKEQRRRREFMMQSRLECLKESPQQNTTNPKEAN 513
Query: 494 HPAILQEQYQELADIRYD 511
I + ++++ R
Sbjct: 514 ---ITELSHKKMMKKRNK 528
>gnl|CDD|113242 pfam04464, Glyphos_transf, CDP-Glycerol:Poly(glycerophosphate)
glycerophosphotransferase. Wall-associated teichoic
acids are a heterogeneous class of phosphate-rich
polymers that are covalently linked to the cell wall
peptidoglycan of gram-positive bacteria. They consist of
a main chain of phosphodiester-linked polyols and/or
sugar moieties attached to peptidoglycan via a linkage
unit. CDP-glycerol:poly(glycerophosphate)
glycerophosphotransferase is responsible for the
polymerisation of the main chain of the teichoic acid by
sequential transfer of glycerol-phosphate units from
CDP-glycerol to the linkage unit lipid.
Length = 186
Score = 29.2 bits (66), Expect = 4.2
Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 6/70 (8%)
Query: 224 TLSKGESVKYLNSPETILFHK----GKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEG 279
T + + K Y L+ L + + R +S +I V
Sbjct: 19 TFRDDGYYSAGSILFNLDLEKLLEKLGENYVILVKLHPLVSNSIINKRYDS--DVIDVSD 76
Query: 280 YMDVLSLCQA 289
Y D+ L A
Sbjct: 77 YSDIQDLFLA 86
>gnl|CDD|38845 KOG3639, KOG3639, KOG3639, C2 Ca2+-binding motif-containing protein
[General function prediction only].
Length = 1239
Score = 28.6 bits (63), Expect = 5.9
Identities = 22/100 (22%), Positives = 33/100 (33%), Gaps = 11/100 (11%)
Query: 143 YLDERGIDSHA-IEMFKLGYAPDSRYSLREHLRQKGFSEEKIIEAGLLIDGDNSATSYDR 201
ERGI + E G D + R + F +EK++EA
Sbjct: 844 DDRERGIGIESRFEKHLFGCQIDPFSQIEFQARFESFEDEKLLEA----------CEKFE 893
Query: 202 FRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNSPETIL 241
FP R VI G + +K + P+ +L
Sbjct: 894 AECAEKFPKRICLPLVIDINGHSTFCTRYLKPIAPPQELL 933
>gnl|CDD|38418 KOG3208, KOG3208, KOG3208, SNARE protein GS28 [Intracellular
trafficking, secretion, and vesicular transport].
Length = 231
Score = 28.4 bits (63), Expect = 6.0
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 12/80 (15%)
Query: 485 AALLLTLINHPAILQEQYQELADIRYDNNELQKLWSFLFS------------DFVEQKYF 532
AA++ TL H ILQ+ QE IR + + ++ S L S F + +
Sbjct: 85 AAVMHTLQRHREILQDYTQEFRRIRSNIDAKRERESLLESVRADISSYPSASGFNRGEMY 144
Query: 533 LPEEIHQRLCERGFGELLKQ 552
L E H R EL+ Q
Sbjct: 145 LKEHDHINNSIRLVDELISQ 164
>gnl|CDD|33903 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 28.3 bits (63), Expect = 7.6
Identities = 18/97 (18%), Positives = 41/97 (42%), Gaps = 19/97 (19%)
Query: 532 FLPEEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFRLL 591
+LPEE RG + D+ A L + + ++ A +R ++
Sbjct: 76 YLPEE-------RGLYPKMTVEDQLKYLAELKG-------MPKAEIQKKLQAWLERLEIV 121
Query: 592 SRQKEEIEKQIAQVTAKGEAEKTAILISILHEVHIQI 628
++ ++I++ +KG +K + +++HE + I
Sbjct: 122 GKKTKKIKE-----LSKGNQQKIQFISAVIHEPELLI 153
>gnl|CDD|37202 KOG1991, KOG1991, KOG1991, Nuclear transport receptor RANBP7/RANBP8
(importin beta superfamily) [Nuclear structure,
Intracellular trafficking, secretion, and vesicular
transport].
Length = 1010
Score = 27.9 bits (62), Expect = 7.6
Identities = 25/108 (23%), Positives = 37/108 (34%), Gaps = 10/108 (9%)
Query: 466 LMQSSLVKGKLSKKPSLREAALLLTLINHPAILQEQYQELADIRYDNNELQKL-----WS 520
L L K KK R+ P ILQ L+ Y + ELQKL S
Sbjct: 149 LCLYQLFKTYEWKKDEERQPLGEAVEELFPDILQIFNGLLSQESYQSVELQKLILKIFKS 208
Query: 521 FLFSD----FVEQKYFLP-EEIHQRLCERGFGELLKQLDRQVRDAGLW 563
++ + + F E+ + R + LD + R + W
Sbjct: 209 LIYYELPLELSAPETFTSWMELFLSILNRPVPVEVLSLDPEDRSSWPW 256
>gnl|CDD|31581 COG1391, GlnE, Glutamine synthetase adenylyltransferase
[Posttranslational modification, protein turnover,
chaperones / Signal transduction mechanisms].
Length = 963
Score = 28.0 bits (62), Expect = 8.7
Identities = 20/112 (17%), Positives = 39/112 (34%), Gaps = 8/112 (7%)
Query: 481 SLREAALLLTLINH--PAILQEQYQELADIRYDNNELQKLWSF-LFSDFVEQKYFLPEEI 537
+L EA L + H I EQ L + + L + F ++ F E E
Sbjct: 386 NLTEAYEFLRRLEHRLQLIADEQTHTLPEDEEERRRLARAMGFADWAAFSEAL-----EE 440
Query: 538 HQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFR 589
H + R F +L+ + + + + + E + + A ++
Sbjct: 441 HLKKVRRVFSQLIGDEEEESLLSEIGNLVWEGDEDEEDTLRTLAALGFEDPE 492
>gnl|CDD|145708 pfam02698, DUF218, DUF218 domain. This large family of proteins
contains several highly conserved charged amino acids,
suggesting this may be an enzymatic domain (Bateman A
pers. obs). The family includes SanA, which is involved
in Vancomycin resistance. This protein may be involved
in murein synthesis.
Length = 148
Score = 28.0 bits (63), Expect = 9.1
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 14/47 (29%)
Query: 152 HAIEMFKLGYAP----------DSRYS----LREHLRQKGFSEEKII 184
A E+++ G AP S +R +L + G E I+
Sbjct: 21 AAAELYRAGPAPRIIVSGGAGGGEPVSEAEVMRRYLVELGVPAEAIL 67
>gnl|CDD|38409 KOG3199, KOG3199, KOG3199, Nicotinamide mononucleotide adenylyl
transferase [Coenzyme transport and metabolism].
Length = 234
Score = 27.6 bits (61), Expect = 9.6
Identities = 27/112 (24%), Positives = 43/112 (38%), Gaps = 9/112 (8%)
Query: 344 PGNRVNFVLLSRGEDPDSFIRCYGKTAFEKL--IVESLPLVDMLWKRETENRSFNTPDER 401
+ V +LL G+ +SF E L I+ LV + + ++ D
Sbjct: 119 TKSDVKVMLLCGGDLIESFGEPNLVWKDEDLRTILGEYGLVCVTREGSDVENFLSSHDII 178
Query: 402 AELE---IHLKN--CINHIKDQKLRYYYS--QAIRDRLQQLFQKYITEHSGY 446
E +H+KN N I KLR Q+++ +YI EH+ Y
Sbjct: 179 LEKRRNILHIKNEIVPNDISSTKLRQAIRRGQSVKYLTPDSVIEYIREHNLY 230
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
0.322 0.139 0.413
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,076,040
Number of extensions: 442649
Number of successful extensions: 1247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1237
Number of HSP's successfully gapped: 37
Length of query: 648
Length of database: 6,263,737
Length adjustment: 100
Effective length of query: 548
Effective length of database: 4,102,837
Effective search space: 2248354676
Effective search space used: 2248354676
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: 61 (27.3 bits)