RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2759
(229 letters)
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 151 bits (384), Expect = 4e-42
Identities = 64/137 (46%), Positives = 88/137 (64%), Gaps = 1/137 (0%)
Query: 16 ILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVII 75
++FATETFA+G+NMPARTV F S K+DG+ R L+P EY QM+GRAGRRGLD GTVI+
Sbjct: 473 VVFATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIV 532
Query: 76 MCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRV-SMVNVEEMMSMSFKEFGSR 134
+ + GK L SQFRL+Y MILNL+RV + E+++ SF +F +
Sbjct: 533 IEPPFESEPSEAAGLASGKLDPLRSQFRLSYNMILNLLRVEGLQTAEDLLERSFAQFQNS 592
Query: 135 FRMQKNKEDLAQLEAKV 151
+ + E L +LE ++
Sbjct: 593 RSLPEIVEKLERLEKEL 609
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 77.8 bits (192), Expect = 2e-16
Identities = 33/73 (45%), Positives = 44/73 (60%), Gaps = 4/73 (5%)
Query: 10 DVFQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSE-RRDLNPAEYIQMAGRAGRR 65
D F+K ++L +T T A GVN+PARTV TR+YD D+ + +QMAGRAGR
Sbjct: 334 DAFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRP 393
Query: 66 GLDESGTVIIMCK 78
G D+ G II+
Sbjct: 394 GYDDYGEAIILAT 406
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 59.2 bits (144), Expect = 3e-10
Identities = 28/63 (44%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 19 ATETFAMGVNMPARTVAFDSTRKYDGSE-RRDLNPAEYIQMAGRAGRRGLDESGTVIIMC 77
+T T A G+N+PAR V R+YDG + + EY QMAGRAGR GLD G +++
Sbjct: 335 STPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGRPGLDPYGEAVLLA 394
Query: 78 KEE 80
K
Sbjct: 395 KSY 397
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 53.8 bits (130), Expect = 2e-09
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 13/71 (18%)
Query: 9 LDVFQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRR 65
L F++ +L AT+ A G+++P +V YD +P+ Y+Q GRAGR
Sbjct: 71 LKDFREGEIVVLVATDVIARGIDLPNVSVVI----NYD----LPWSPSSYLQRIGRAGRA 122
Query: 66 GLDESGTVIIM 76
G + GT I++
Sbjct: 123 G--QKGTAILL 131
>gnl|CDD|234702 PRK00254, PRK00254, ski2-like helicase; Provisional.
Length = 720
Score = 56.7 bits (137), Expect = 2e-09
Identities = 48/156 (30%), Positives = 74/156 (47%), Gaps = 23/156 (14%)
Query: 10 DVFQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
D F++ +++ AT T + G+N+PA V T++Y D+ E QM GRAGR
Sbjct: 315 DAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRPK 374
Query: 67 LDESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQ------FRLTYAMILNLMRVSMVNV 120
DE G II+ E P + +++ + GK KL S FR + +L L ++ V
Sbjct: 375 YDEVGEAIIVATTEEPS-KLMERYIFGKPEKLFSMLSNESAFR---SQVLAL--ITNFGV 428
Query: 121 EEMMSMSFKE---FGSRFRMQKNKEDLAQLEAKVRQ 153
+FKE F R ++DL LE K ++
Sbjct: 429 S-----NFKELVNFLERTFYAHQRKDLYSLEEKAKE 459
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 49.1 bits (118), Expect = 3e-08
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 10/54 (18%)
Query: 14 KQILFATETFAMGVNMP-ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
++L AT+ G+++P V YD +PA YIQ GRAGR G
Sbjct: 38 IKVLVATDVAERGLDLPGVDLVII-----YD----LPWSPASYIQRIGRAGRAG 82
>gnl|CDD|100801 PRK01172, PRK01172, ski2-like helicase; Provisional.
Length = 674
Score = 49.9 bits (119), Expect = 4e-07
Identities = 39/139 (28%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
+++ AT T A GVN+PAR V +Y R L+ E QM GRAGR G D+ G
Sbjct: 313 KVIVATPTLAAGVNLPARLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGY 372
Query: 75 I---------MCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMS 125
I K+ L G+ +G Q K+ +F T A I + SM ++ +
Sbjct: 373 IYAASPASYDAAKKYLSGEPEPVISYMGSQRKV--RFN-TLAAISMGLASSMEDLILFYN 429
Query: 126 MSFKEFGSRFRMQKNKEDL 144
+ +Q +++
Sbjct: 430 ETL------MAIQNGVDEI 442
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety
of helicases and helicase related proteins. It may be
that this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 44.8 bits (107), Expect = 1e-06
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 10/53 (18%)
Query: 15 QILFATETFAMGVNMP-ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
++L AT+ G+++P V YD NPA YIQ GRAGR G
Sbjct: 35 KVLVATDVAGRGIDLPDVNLVIN-----YDL----PWNPASYIQRIGRAGRAG 78
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 47.1 bits (112), Expect = 3e-06
Identities = 26/70 (37%), Positives = 33/70 (47%), Gaps = 7/70 (10%)
Query: 10 DVFQKQILFA---TETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
F Q L A T A GV+ PA V F+S G E L+ E+ QM GRAGR
Sbjct: 484 RAFAAQELAAVVTTAALAAGVDFPASQVIFESLAM--GIEW--LSVREFQQMLGRAGRPD 539
Query: 67 LDESGTVIIM 76
+ G V ++
Sbjct: 540 YHDRGKVYLL 549
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 38.5 bits (90), Expect = 0.002
Identities = 26/63 (41%), Positives = 30/63 (47%), Gaps = 15/63 (23%)
Query: 10 DVFQK---QILFATETFAMGVNMP-ARTVA-FDSTRKYDGSERRDLNPAEYIQMAGRAGR 64
+ FQ+ QI+ AT F MG+N P R V FD R N Y Q GRAGR
Sbjct: 280 EAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPR----------NIESYYQETGRAGR 329
Query: 65 RGL 67
GL
Sbjct: 330 DGL 332
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 34.8 bits (80), Expect = 0.034
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 12/81 (14%)
Query: 13 QKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGT 72
+ ++L AT+ A G+++P + YD L+P +Y+ GR GR G G
Sbjct: 323 ELRVLVATDVAARGLDIPDVSHVI----NYDLP----LDPEDYVHRIGRTGRAGR--KGV 372
Query: 73 VIIMC--KEELPGQEALKKMM 91
I +EE+ + ++K +
Sbjct: 373 AISFVTEEEEVKKLKRIEKRL 393
>gnl|CDD|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family. All
proteins in this family for which functions are known
are 3'-5' DNA-DNA helicases. These proteins are used for
recombination, recombinational repair, and possibly
maintenance of chromosome stability. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 470
Score = 32.4 bits (74), Expect = 0.17
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 12/55 (21%)
Query: 15 QILFATETFAMGVNMP-ARTVA-FDSTRKYDGSERRDLNPAEYIQMAGRAGRRGL 67
Q++ AT F MG+N P R V + + + Y Q +GRAGR GL
Sbjct: 278 QVVVATVAFGMGINKPDVRFVIHYSLPKSMES----------YYQESGRAGRDGL 322
>gnl|CDD|226583 COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA
uptake (late competence protein) [DNA replication,
recombination, and repair].
Length = 441
Score = 32.1 bits (73), Expect = 0.22
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 13 QKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGT 72
+ +L T GV P V G+E R + +Q+AGR GR +G
Sbjct: 355 KITLLITTTILERGVTFPNVDVFVL------GAEHRVFTESALVQIAGRVGRSLERPTGD 408
Query: 73 VI 74
V+
Sbjct: 409 VL 410
>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ. The
ATP-dependent DNA helicase RecQ of E. coli is about 600
residues long. This model represents bacterial proteins
with a high degree of similarity in domain architecture
and in primary sequence to E. coli RecQ. The model
excludes eukaryotic and archaeal proteins with RecQ-like
regions, as well as more distantly related bacterial
helicases related to RecQ [DNA metabolism, DNA
replication, recombination, and repair].
Length = 591
Score = 32.0 bits (73), Expect = 0.24
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 13 QKQILFATETFAMGVNMP-ARTVA-FDSTRKYDGSERRDLNPAEYIQMAGRAGRRGL 67
+++ AT F MG++ P R V +D + Y Q AGRAGR GL
Sbjct: 274 DVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLES----------YYQEAGRAGRDGL 320
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 31.9 bits (73), Expect = 0.24
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 12/55 (21%)
Query: 15 QILFATETFAMGVNMP-ARTVA-FDSTRKYDGSERRDLNPAEYIQMAGRAGRRGL 67
+++ AT F MG++ P R V +D + Y Q GRAGR GL
Sbjct: 282 KVMVATNAFGMGIDKPDVRFVIHYDLPG----------SIESYYQETGRAGRDGL 326
>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 30.1 bits (68), Expect = 0.91
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 54 EYIQMAGRAGRRGLDESGTVIIMCKEE 80
EYI GRA R + E GT I+ EE
Sbjct: 451 EYIHQIGRASR--MGEKGTAIVFVNEE 475
>gnl|CDD|241461 cd13307, PH2_AFAP, Actin filament associated protein family
Pleckstrin homology (PH) domain, repeat 2. There are 3
members of the AFAP family of adaptor proteins: AFAP1,
AFAP1L1, and AFAP1L2/XB130. AFAP1 is a cSrc binding
partner and actin cross-linking protein. AFAP1L1 is
thought to play a similar role to AFAP1 in terms of
being an actin cross-linking protein, but it
preferentially binds to cortactin and not cSrc, thereby
playing a role in invadosome formation. AFAP1L2 is a
cSrc binding protein, but does not bind to actin
filaments. AFAP1L2 acts as an intermediary between the
RET/PTC kinase and PI-3kinase pathway in the thyroid.
The AFAPs share a similar structure of a SH3 binding
motif, 3 SH2 binding motifs, 2 PH domains, a coiled-coil
region corresponding to the AFAP1 leucine zipper, and an
actin binding domain. This cd is the second PH domain of
AFAP. PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 101
Score = 28.5 bits (64), Expect = 1.2
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 134 RFRMQKNKEDLAQLEAK 150
FR+ +N E++A LEA
Sbjct: 62 SFRILRNGEEVAVLEAS 78
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 29.5 bits (66), Expect = 1.6
Identities = 25/67 (37%), Positives = 28/67 (41%), Gaps = 19/67 (28%)
Query: 13 QKQ-------ILFATETFAMGVNMP-ARTVAFDSTRK-YDGSERRDLNPAEYIQMAGRAG 63
QKQ I+ AT F MG+N P R V S K +G Y Q GRAG
Sbjct: 723 QKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG----------YHQECGRAG 772
Query: 64 RRGLDES 70
R G S
Sbjct: 773 RDGQRSS 779
>gnl|CDD|99996 cd04300, GT1_Glycogen_Phosphorylase, This is a family of
oligosaccharide phosphorylases. It includes yeast and
mammalian glycogen phosphorylases, plant starch/glucan
phosphorylase, as well as the maltodextrin
phosphorylases of bacteria. The members of this family
catalyze the breakdown of oligosaccharides into
glucose-1-phosphate units. They are important allosteric
enzymes in carbohydrate metabolism. The allosteric
control mechanisms of yeast and mammalian members of
this family are different from that of bacterial
members. The members of this family belong to the GT-B
structural superfamily of glycoslytransferases, which
have characteristic N- and C-terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two
domains includes the catalytic center and permits a high
degree of flexibility.
Length = 797
Score = 29.4 bits (67), Expect = 1.8
Identities = 22/54 (40%), Positives = 22/54 (40%), Gaps = 12/54 (22%)
Query: 129 KEFGSRFRM--QKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFD-QAKRFFE 179
F FR Q NKE LA K G EV D D L FD Q KR E
Sbjct: 497 PAFLKEFRAIKQANKERLAAY-IKKTTGVEV----DPDSL----FDVQVKRIHE 541
>gnl|CDD|223364 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 28.4 bits (64), Expect = 2.6
Identities = 26/165 (15%), Positives = 52/165 (31%), Gaps = 54/165 (32%)
Query: 58 MAGRAGRRGLDESGTVIIMCKEELPGQEALKKMM---LGKQTKL--------------VS 100
M G GL E V+++ E +E ++++ +L VS
Sbjct: 124 MFGPEADAGLFE-NAVVVLTPSEGTEKEWVEEVKRLWEALGARLVEMDAEEHDRVMAAVS 182
Query: 101 QFRLTYAMILNLMRVSM-VNVEEMM-----SMSFKEFGSRFR--------MQKN------ 140
L +A L L + EE++ S F++ +Q +
Sbjct: 183 H--LPHAAALALANALAKLETEELLVLKLASGGFRDITRIASSDPEMYADIQLSNKEALL 240
Query: 141 ------KEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFE 179
+ L +L+ + G + F++AK+ +
Sbjct: 241 EAIERFAKSLDELKELIENGDAEA--------LADLFEEAKKIRD 277
>gnl|CDD|233194 TIGR00930, 2a30, K-Cl cotransporter. [Transport and binding
proteins, Other].
Length = 953
Score = 28.5 bits (64), Expect = 3.2
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 85 EALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMSMSFKEFGSRFRMQKNKEDL 144
E KK M L+ +FR+ +I+ LM ++ E M +F+E FR+ K ++D
Sbjct: 806 EQEKKDM----ATLLYKFRIDAEVIVVLMDINAKPQTESME-AFEEMIRPFRLHKTEKDR 860
Query: 145 AQLEAKVRQGGEVRQAQ 161
+ K+ +
Sbjct: 861 EAKDPKMTWTKPWKITD 877
>gnl|CDD|221386 pfam12029, DUF3516, Domain of unknown function (DUF3516). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is typically
between 460 to 473 amino acids in length. This domain is
found associated with pfam00270, pfam00271.
Length = 462
Score = 28.4 bits (64), Expect = 3.2
Identities = 7/16 (43%), Positives = 15/16 (93%)
Query: 98 LVSQFRLTYAMILNLM 113
L S+FR++++M+LN++
Sbjct: 53 LTSRFRVSHSMLLNVI 68
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 28.6 bits (65), Expect = 3.3
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 55 YIQMAGRAGRRGLDESGTVII 75
Q+AGRAGR G V+I
Sbjct: 526 LTQVAGRAGRAEK--PGEVLI 544
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 28.1 bits (63), Expect = 4.4
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 53 AEYIQMAGRAGRRG 66
+ Q AGRAGRRG
Sbjct: 397 LSFRQRAGRAGRRG 410
>gnl|CDD|132195 TIGR03151, enACPred_II, putative enoyl-[acyl-carrier-protein]
reductase II. This oxidoreductase of the 2-nitropropane
dioxygenase family (pfam03060) is commonly found in
apparent operons with genes involved in fatty acid
biosynthesis. Furthermore, this genomic context
generally includes the fabG 3-oxoacyl-[ACP] reductase
and lacks the fabI enoyl-[ACP] reductase.
Length = 307
Score = 27.8 bits (62), Expect = 5.2
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 30 PARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDE---------SGTVIIMCKEE 80
P R + TRKY E+ +P E+ ++ A RR + E +G + + KE
Sbjct: 227 PVRVLKNKLTRKYQELEKEGASPEEFEKLGAGALRRAVVEGDVENGSVMAGQIAGLIKEI 286
Query: 81 LPGQEALKKMMLG 93
P +E ++ +M
Sbjct: 287 KPAKEIIEDIMSE 299
>gnl|CDD|211367 cd09256, AP_MuD_MHD, Mu-homology domain (MHD) of a adaptor protein
(AP) encoded by mu-2 related death-inducing gene, MuD
(also known as MUDENG). This family corresponds to the
MHD found in a protein encoded by MuD, which is
distantly related to the C-terminal domain of the mu2
subunit of AP complexes that participates in
clathrin-mediated endocytosis. MuD is evolutionary
conserved from mammals to amphibians. It is able to
induce cell death by itself and plays an important role
in cell death in various tissues.
Length = 271
Score = 27.3 bits (61), Expect = 6.7
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 138 QKNKEDL-AQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMS 186
QK + L A L V G E +A D K F+I D +S
Sbjct: 187 QKFPKSLEATLSGTVNFGSEQNEADVEDPFCTGLNAYVKLSFKISDFTLS 236
>gnl|CDD|188336 TIGR03535, DapD_actino,
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate
N-succinyltransferase. This enzyme is part of the
diaminopimelate pathway of lysine biosynthesis. This
model represents a clade of the enzyme specific to
Actinobacteria. Alternate name: tetrahydrodipicolinate
N-succinyltransferase.
Length = 319
Score = 27.4 bits (61), Expect = 7.2
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 43 DGSERRDLNPAEYIQMAGRAGRRG 66
G+ER D++PAE +AGR RG
Sbjct: 33 AGTERLDVDPAELAALAGRDADRG 56
>gnl|CDD|233040 TIGR00595, priA, primosomal protein N'. All proteins in this
family for which functions are known are components of
the primosome which is involved in replication, repair,
and recombination.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 505
Score = 27.3 bits (61), Expect = 7.3
Identities = 23/69 (33%), Positives = 28/69 (40%), Gaps = 16/69 (23%)
Query: 16 ILFATETFAMGVNMPART----VAFDSTRKYDGSERRDLNPAE-----YIQMAGRAGRRG 66
IL T+ A G + P T + DS D AE Q+AGRAGR
Sbjct: 315 ILIGTQMIAKGHHFPNVTLVGVLDADSGLHSP-----DFRAAERGFQLLTQVAGRAGRAE 369
Query: 67 LDESGTVII 75
+ G VII
Sbjct: 370 --DPGQVII 376
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.136 0.387
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,747,665
Number of extensions: 1111809
Number of successful extensions: 1377
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1364
Number of HSP's successfully gapped: 39
Length of query: 229
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 135
Effective length of database: 6,768,326
Effective search space: 913724010
Effective search space used: 913724010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 57 (25.6 bits)