RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013114
(449 letters)
>gnl|CDD|223082 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning
[Cell division and chromosome partitioning].
Length = 322
Score = 77.8 bits (192), Expect = 7e-16
Identities = 66/246 (26%), Positives = 106/246 (43%), Gaps = 37/246 (15%)
Query: 48 STTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAE--YILNCKIGNSPVV 105
T ++ F GKGG GKTT A AA +A ++L S DP + + ++G+ P
Sbjct: 1 MTRIVFFTGKGGVGKTTIA--AATAVKLAESGKKVLLVSTDPAHSLGDVFDLELGHDPRK 58
Query: 106 CNSNLSAVRIETTKMFLEPLNWLKQADARLNMTQGVLGGVVGEELGVLPGMDSIFSAFAL 165
NL A+ ++ K E + +K ARL T+G LGG+ +EL LPG+D + L
Sbjct: 59 VGPNLDALELDPEKALEEYWDEVKDYLARLLRTRG-LGGIYADELATLPGIDEALA---L 114
Query: 166 ERLVGFFGNFAQRNHQKEKFDVIVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTDLG 225
+++ ++ ++DVIV D TLR++ + YL+
Sbjct: 115 LKILEYY--------VSGEYDVIVVDTAPTGHTLRLLSLPEVLGWYLE------------ 154
Query: 226 RLTAPSLLKLVDEALSISG--RRPLLNGNTSAEIWDAMDRMLERG---SSALAEPHKFGC 280
+L P ++V S+S PL + +A++ + ER L P
Sbjct: 155 KLFKPRRKRMVKALKSLSTAAGSPLP----DDAVLEALEELKERIADVREVLTNPDGTSF 210
Query: 281 FLVMNP 286
LV P
Sbjct: 211 RLVSIP 216
>gnl|CDD|217004 pfam02374, ArsA_ATPase, Anion-transporting ATPase. This Pfam
family represents a conserved domain, which is sometimes
repeated, in an anion-transporting ATPase. The ATPase is
involved in the removal of arsenate, antimonite, and
arsenate from the cell.
Length = 304
Score = 60.8 bits (148), Expect = 3e-10
Identities = 71/328 (21%), Positives = 126/328 (38%), Gaps = 70/328 (21%)
Query: 49 TTLITFLGKGGSGKTT-SAVFAAQHYAMAGLSTCLVLHSQDPTAEY--ILNCKIGNSP-- 103
I F GKGG GKTT S A + + G LV S DP N K G+ P
Sbjct: 1 MRWIFFGGKGGVGKTTVSCATAVR-LSEQGKKVLLV--STDPAHSLSDSFNQKFGHEPTK 57
Query: 104 VVCNSNLSAVRIETTKMFLEPLNWLKQADARLNMTQGVLGGVVGEELGVLPGMDSIFSAF 163
+ NLSA+ I+ E ++ + L G++ EEL LPG+D I S
Sbjct: 58 IKGVENLSAMEIDPQMELEEYRGEVQDPINAVLGLDM-LEGILAEELSSLPGIDEIASFD 116
Query: 164 ALERLVGFFGNFAQRNHQKEKFDVIVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTD 223
++ + + ++DV+++D TLR+
Sbjct: 117 EFKKYM-----------DEGEYDVVIFDTAPTGHTLRL---------------------- 143
Query: 224 LGRLTAPSLL-KLVDEALSISGR-RPLLN-----GNTSAEIWDAMDRM------LERGSS 270
L+ P++L +++ + + + PL G + + +A++ + +E+
Sbjct: 144 ---LSLPTVLSWYLEKIVKLKNQIGPLAKPFKGMGMGGSCLPEALESLEETKEQIEKARE 200
Query: 271 ALAEPHKFGCFLVMNPNNRTSVNS-----ALRYWGCTIQA-------GAQVAGAICTASP 318
L++P + LV P + + L +G + A C A
Sbjct: 201 ILSDPERTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQVLPETEQCPFCEARK 260
Query: 319 HLDEESAERVRKNFSPLPLSFLPHLPTD 346
+ ++ + + + FS LP++ LP LP +
Sbjct: 261 EIQQKYLKEIEELFSDLPVAKLPLLPEE 288
>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence.
Length = 217
Score = 52.6 bits (127), Expect = 7e-08
Identities = 46/161 (28%), Positives = 65/161 (40%), Gaps = 35/161 (21%)
Query: 51 LITFLGKGGSGKTT-SAVFAAQHYAMAGLSTCLVLHSQDPTAEYILNCKIGNSPVVCNSN 109
+I F GKGG GKTT +A A + A G LV S DP N N
Sbjct: 1 VIFFTGKGGVGKTTIAAATAVRL-AEEGKKVLLV--STDPAH---------NLSDKGLPN 48
Query: 110 LSAVRIETTKMFLEPLNWLKQ--ADARLNMTQGVLGGVVGEELGVLPGMDSIFSAFALER 167
LS I + P + ++ A R+ G GG++ E LPG++ + S A+ R
Sbjct: 49 LSDAFIVED-PEIAPNLYREEVDATRRVERAWGGEGGLMLELAAALPGIEELASLLAVFR 107
Query: 168 LVGFFGNFAQRNHQKEKFDVIVYD----GISPEETLRMIGV 204
+ +DVIV+D G TLR++
Sbjct: 108 EF-----------SEGLYDVIVFDTAPTG----HTLRLLVR 133
>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to
a conserved family of bacterial proteins implicated in
chromosome segregation. ParB binds to DNA sequences
adjacent to the origin of replication and localizes to
opposite cell poles shortly following the initiation of
DNA replication. ParB regulates the ParA ATPase
activity by promoting nucleotide exchange in a fashion
reminiscent of the exchange factors of eukaryotic G
proteins. ADP-bound ParA binds single-stranded DNA,
whereas the ATP-bound form dissociates ParB from its
DNA binding sites. Increasing the fraction of ParA-ADP
in the cell inhibits cell division, suggesting that
this simple nucleotide switch may regulate cytokinesis.
ParA shares sequence similarity to a conserved and
widespread family of ATPases which includes the repA
protein of the repABC operon in R. etli Sym plasmid.
This operon is involved in the plasmid replication and
partition.
Length = 104
Score = 44.1 bits (105), Expect = 9e-06
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 57 KGGSGKTTSAVFAAQHYAMAGLSTCLV-LHSQDPTAEYIL 95
KGG GKTT+AV A A G L+ L DP +YI+
Sbjct: 8 KGGVGKTTTAVNLAAALARRGKRVLLIDL---DPQYDYII 44
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety
of proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 39.3 bits (92), Expect = 4e-04
Identities = 14/32 (43%), Positives = 15/32 (46%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
I GKGG GKTT A A A G L+
Sbjct: 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLI 33
>gnl|CDD|232932 TIGR00345, GET3_arsA_TRC40, transport-energizing ATPase,
TRC40/GET3/ArsA family. Members of this family are
ATPases that energize transport, although with different
partner proteins for different functions. Recent
findings show that TRC40 (GET3 in yeast) in involved in
the insertion of tail-anchored membrane proteins in
eukaryotes. A similar function is expected for members
of this family in archaea. However, the earliest
discovery of a function for this protein family is ArsA,
an arsenic resistance protein that partners with ArsB
(see pfam02040) for As(III) efflux [Hypothetical
proteins, Conserved].
Length = 284
Score = 40.2 bits (94), Expect = 0.001
Identities = 61/307 (19%), Positives = 117/307 (38%), Gaps = 63/307 (20%)
Query: 65 SAVFAAQHYAMAGLSTCLVLHSQDPTAEY--ILNCKIGNSP--VVCNSNLSAVRIETTKM 120
SA A + A G LV S DP + +IG++P V NLSAV I+
Sbjct: 2 SAATAIR-LAEQGKKVLLV--STDPAHSLSDVFEQEIGHTPTKVTGVENLSAVEID---- 54
Query: 121 FLEPLNWLKQADARL------NMTQGVLGGVVGEELGVLPGMDSIFSAFALERLVGFFGN 174
P L++ A+L N+ G + G E + PG+D I + + +
Sbjct: 55 ---PQAALEEYRAKLVEQIKGNLPDGDMLGDQLEGAALSPGIDEIAAFDEFLKHM----- 106
Query: 175 FAQRNHQKEKFDVIVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTDLGRLTAPSLLK 234
+ +FDV+++D TLR++ + +L+ + + ++ LG + +
Sbjct: 107 ----TDAENEFDVVIFDTAPTGHTLRLLQLPEVLSSFLE--KFIKIRSKLGPMAKLFMGA 160
Query: 235 LVDEALSISGRRPLLNGNTSAEIWDAMDRMLER---GSSALAEPHKFGCFLVMNPNNRTS 291
D+ E + ++ + E+ L++P + LV+ P +
Sbjct: 161 GEDD-----------------EALEKLEELKEQIEAAREILSDPERTSFVLVVIPEKMSL 203
Query: 292 VNS-----ALRYWGCTIQA-------GAQVAGAICTASPHLDEESAERVRKNFSPLPLSF 339
S L +G + A C A L ++ +++ + F+ LP++
Sbjct: 204 YESERAHKELAKYGIKVDAVIVNQVLPENAQDEFCQARWELQQKYLKQIPEKFADLPVAE 263
Query: 340 LPHLPTD 346
+P +
Sbjct: 264 VPLQKEE 270
>gnl|CDD|213904 TIGR04291, arsen_driv_ArsA, arsenical pump-driving ATPase. The
broader family (TIGR00345) to which the current family
belongs consists of transport-energizing ATPases,
including to TRC40/GET3 family involved in
post-translational insertion of protein C-terminal
transmembrane anchors into membranes from the cyotosolic
face. This family, however, is restricted to ATPases
that energize pumps that export arsenite (or
antimonite).
Length = 566
Score = 38.5 bits (90), Expect = 0.006
Identities = 40/160 (25%), Positives = 57/160 (35%), Gaps = 30/160 (18%)
Query: 54 FLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAEY--ILNCKIGNSPVVCNS--N 109
F GKGG GKT+ A A + A G LV S DP + + IGN
Sbjct: 8 FTGKGGVGKTSIACATAINLADQGKRVLLV--STDPASNVGQVFGQTIGNKITAIAGVPG 65
Query: 110 LSAVRIETTKMFLEPLNWLKQADARLNMTQGVLGGVVGEELGVLP-----GMDSIFSAFA 164
L A+ I+ P + AR +V GVLP ++ S
Sbjct: 66 LFALEID-------PQAAAQAYRAR----------IVDPVRGVLPDDVVSSIEEQLSGAC 108
Query: 165 LERLVGF--FGNFAQRNHQKEKFDVIVYDGISPEETLRMI 202
+ F F + FD I++D T+R++
Sbjct: 109 TTEIAAFDEFTGLLTDAELTQDFDHIIFDTAPTGHTIRLL 148
Score = 33.1 bits (76), Expect = 0.28
Identities = 21/53 (39%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 51 LITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTA--EYILNCKIGN 101
LI +GKGG GKTT A A A GL + L + DP A L + N
Sbjct: 323 LIMTMGKGGVGKTTVAAAIAVRLANKGLD--VHLTTSDPAAHLSVTLTGSLNN 373
>gnl|CDD|234215 TIGR03453, partition_RepA, plasmid partitioning protein RepA.
Members of this family are the RepA (or ParA) protein
involved in replicon partitioning. All known examples
occur in bacterial species with two or more replicons,
on a plasmid or the smaller chromosome. Note that an
apparent exception may be seen as a pseudomolecule from
assembly of an incompletely sequenced genome. Members of
this family belong to a larger family that also includes
the enzyme cobyrinic acid a,c-diamide synthase, but
assignment of that name to members of this family would
be in error [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 387
Score = 37.3 bits (87), Expect = 0.016
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 57 KGGSGKTTSAVFAAQHYAMAGL 78
KGGSGKTT+A AQ+ A+ G
Sbjct: 113 KGGSGKTTTAAHLAQYLALRGY 134
>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 34.7 bits (80), Expect = 0.073
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 56 GKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
GKGG GK+T AV A A G L+
Sbjct: 65 GKGGVGKSTVAVNLAAALAQLGKRVLLL 92
>gnl|CDD|223200 COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA
glycosylase [DNA replication, recombination, and
repair].
Length = 285
Score = 33.9 bits (78), Expect = 0.14
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 9/85 (10%)
Query: 158 SIFSAFAL-ERLVGFFGNFAQRNHQKEKFDVIVYDGISPEETLRMIGVSS-KARLYLKYL 215
S+ +A + RLV +GN + H + + + EE LR G+S KA Y+
Sbjct: 119 SVAAAAKIWARLVSLYGNALEIYHSFPTPEQLAA---ADEEALRRCGLSGRKAE----YI 171
Query: 216 RNVAEKTDLGRLTAPSLLKLVDEAL 240
++A G L L L DE
Sbjct: 172 ISLARAAAEGELDLSELKPLSDEEA 196
>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible
oxidation of CO to CO2. CODH contains a
nickel-iron-sulfur cluster (C-center) and an
iron-sulfur cluster (B-center). CO oxidation occurs at
the C-center. Three accessory proteins encoded by
cooCTJ genes are involved in nickel incorporation into
a nickel site. CooC functions as a nickel insertase
that mobilizes nickel to apoCODH using energy released
from ATP hydrolysis. CooC is a homodimer and has NTPase
activities. Mutation at the P-loop abolishs its
function.
Length = 116
Score = 31.4 bits (72), Expect = 0.25
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHYA 74
I GKGG GKTT A A++ A
Sbjct: 2 IAITGKGGVGKTTIAALLARYLA 24
>gnl|CDD|224113 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 32.9 bits (75), Expect = 0.30
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 52 ITFLG-KGGSGKTTSAVFAAQHYA-MAGLSTCLV 83
I KGG GKTT+AV A A G L+
Sbjct: 5 IAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLI 38
>gnl|CDD|238682 cd01386, MYSc_type_XVIII, Myosin motor domain, type XVIII myosins.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 767
Score = 33.3 bits (76), Expect = 0.31
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAEYILNCKIGNSPVVCNSN 109
I FLG+ G+GKTTS A ++ A+A S + + A + + GN N N
Sbjct: 89 IIFLGRSGAGKTTSCKHALEYLALAAGSVDGRVSVEKVRALFTILEAFGNVSTALNGN 146
>gnl|CDD|222854 PHA02518, PHA02518, ParA-like protein; Provisional.
Length = 211
Score = 31.7 bits (72), Expect = 0.51
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 57 KGGSGKTTSAVFAAQHYAMAGLSTCLV-LHSQDPTAEYI 94
KGG+GKTT A A G LV L Q + ++
Sbjct: 9 KGGAGKTTVATNLASWLHADGHKVLLVDLDPQGSSTDWA 47
>gnl|CDD|180911 PRK07261, PRK07261, topology modulation protein; Provisional.
Length = 171
Score = 30.8 bits (70), Expect = 0.74
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLH 85
I +G GSGK+T A +QHY C VLH
Sbjct: 3 IAIIGYSGSGKSTLARKLSQHY------NCPVLH 30
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 32.0 bits (73), Expect = 0.75
Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 25/92 (27%)
Query: 115 IETTKMFLEPLNWLKQADARLNMTQGVLGG-----------VVGEELGVLPGMDSIFSAF 163
+ETTK F++ L+ LK L++ G+ GG VVG +L V M S F
Sbjct: 252 LETTKEFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENFDVHVVGIDLSV--NMIS----F 304
Query: 164 ALERLVGF-------FGNFAQRNHQKEKFDVI 188
ALER +G + ++ + FDVI
Sbjct: 305 ALERAIGRKCSVEFEVADCTKKTYPDNSFDVI 336
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
This model represents examples from the eukaryotic
cytosol of the signal recognition particle protein
component, SRP54. This GTP-binding protein is a
component of the eukaryotic signal recognition particle,
along with several other protein subunits and a 7S RNA.
Some species, including Arabidopsis, have several
closely related forms. The extreme C-terminal region is
glycine-rich and lower in complexity, poorly conserved
between species, and excluded from this model.
Length = 429
Score = 31.7 bits (72), Expect = 0.75
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 48 STTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
+I F+G GSGKTT+ A +Y G CLV
Sbjct: 99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLV 134
>gnl|CDD|179732 PRK04056, PRK04056, Maf-like protein; Reviewed.
Length = 180
Score = 30.3 bits (69), Expect = 1.2
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 12/76 (15%)
Query: 346 DSSLDWNTIMLNPAG--KEARDLLSLQAKRSSSLMSSVKFDAAKK-----SVT-LLMPGF 397
DS + +L A +EAR++L LQ+ S+++ + + +K SVT F
Sbjct: 68 DSVVSCGNKILRKAKDKEEAREMLKLQSGNEISVLTCMILKSPEKEWLDLSVTTYRFKKF 127
Query: 398 DKSEIKLY----QYRG 409
D+ +++ Y ++G
Sbjct: 128 DEDDLEKYLESGLWQG 143
>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of
a septum at mid-cell. The site is determined by the min
operon products MinC, MinD and MinE. MinC is a
nonspecific inhibitor of the septum protein FtsZ. MinE
is the supressor of MinC. MinD plays a pivotal role,
selecting the mid-cell over other sites through the
activation and regulation of MinC and MinE. MinD is a
membrane-associated ATPase, related to nitrogenase iron
protein. More distantly related proteins include
flagellar biosynthesis proteins and ParA chromosome
partitioning proteins. MinD is a monomer.
Length = 179
Score = 29.9 bits (68), Expect = 2.0
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 56 GKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
GKGG GKTT+ A G L+
Sbjct: 7 GKGGVGKTTTTANLGTALAQLGYKVVLI 34
>gnl|CDD|234711 PRK00279, adk, adenylate kinase; Reviewed.
Length = 215
Score = 30.1 bits (69), Expect = 2.0
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHYAMAGLST 80
+ LG G+GK T A F A+ Y + +ST
Sbjct: 3 LILLGPPGAGKGTQAKFIAEKYGIPHIST 31
>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyze amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well
as the plasmid partitioning proteins of the MinD/ParA
family.
Length = 217
Score = 30.1 bits (68), Expect = 2.0
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 56 GKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
KGG GKTT A A+ A G L+
Sbjct: 6 TKGGVGKTTLAANLARALAKRGYRVLLI 33
>gnl|CDD|232802 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adenosine modification
protein, Sua5/YciO/YrdC/YwlC family. Has paralogs, but
YrdC called a tRNA modification protein. Ref 2 authors
say probably heteromultimeric complex. Paralogs may mean
its does the final binding to the tRNA [Protein
synthesis, tRNA and rRNA base modification].
Length = 201
Score = 29.2 bits (66), Expect = 3.2
Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 323 ESAERVRKNFSPLPLSFL----PHLPTDSSLDWNTIMLN-PAGKEARDLLSLQAKR--SS 375
+ A+R+ K F P PL+ + P +P S TI + P A +LL K ++
Sbjct: 77 DDAKRLMKKFWPGPLTLVLKKTPEIPRRVSGKRKTIGIRVPDNPIALELLEELGKPIVAT 136
Query: 376 SLM-----SSVKFDAAKK 388
S S+ + A
Sbjct: 137 SANLSGKPSATDVEEAVD 154
>gnl|CDD|139929 PRK13869, PRK13869, plasmid-partitioning protein RepA; Provisional.
Length = 405
Score = 29.6 bits (66), Expect = 3.3
Identities = 25/67 (37%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 57 KGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAEYILNCKIGNSP---VVCNSNL-SA 112
KGGSGKTT++ AQ+ A+ G V DP A L+ +G P V N L +A
Sbjct: 130 KGGSGKTTTSAHLAQYLALQGYRVLAV--DLDPQAS--LSALLGVLPETDVGANETLYAA 185
Query: 113 VRIETTK 119
+R + T+
Sbjct: 186 IRYDDTR 192
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 30.0 bits (68), Expect = 3.4
Identities = 43/178 (24%), Positives = 68/178 (38%), Gaps = 26/178 (14%)
Query: 92 EYILNCKIGNSPVVCNSNLSAVRIETTKMFLEPLNWLKQAD-----ARLNMTQG-VLGGV 145
+Y+L ++ V N L A+ +T L +W+ +AD + G +L
Sbjct: 570 DYLLGERLDELAVEYNLLLQAL--KTAARLL---DWINEADEDEILNAYGVAPGDLLRIA 624
Query: 146 VGEELGVLPGMDSIFSAFALERLVGFFGNFAQRNHQKEKFDVIVYDGISPEETL-----R 200
E + A ERL G + E + + G+ EE L R
Sbjct: 625 ETAEWLSADLLAL---GKAAERLAKILGLGLHVLRKLEILSLRIEYGVRSEELLELVEIR 681
Query: 201 MIGVSSKARLY------LKYLRNVAEKTDLGRLTAPSLLKLVDEALSISGRRPLLNGN 252
+G +LY L+ LR +A+ +L LT +LV+ L GR LL+G
Sbjct: 682 GVGRVRARKLYNAGYKSLEDLRLIADPAELLPLTG-IGERLVEAILESLGRDVLLSGR 738
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase
chain; Provisional.
Length = 1033
Score = 29.8 bits (67), Expect = 3.5
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 6/29 (20%)
Query: 167 RLVGFFGNFAQRNHQKE------KFDVIV 189
R V F GN +R HQ+E KFDV V
Sbjct: 246 RAVKFHGNPEERAHQREELLVAGKFDVCV 274
>gnl|CDD|201032 pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster binding
proteins, NifH/frxC family.
Length = 272
Score = 29.2 bits (66), Expect = 3.5
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 52 ITFLGKGGSGK-TTSAVFAAQHYAMAGLSTCLVLHSQDPTAE 92
I GKGG GK TT+ +A A+A + +++ DP A+
Sbjct: 3 IAIYGKGGIGKSTTTQNTSA---ALAEMGKKVLIVGCDPKAD 41
>gnl|CDD|173737 cd07834, STKc_MAPK, Catalytic domain of the Serine/Threonine
Kinase, Mitogen-Activated Protein Kinase.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase (MAPK) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The MAPK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs serve as important
mediators of cellular responses to extracellular
signals. They control critical cellular functions
including differentiation, proliferation, migration, and
apoptosis. They are also implicated in the pathogenesis
of many diseases including multiple types of cancer,
stroke, diabetes, and chronic inflammation. Typical MAPK
pathways involve a triple kinase core cascade comprising
of the MAPK, which is phosphorylated and activated by a
MAPK kinase (MAP2K or MKK), which itself is
phosphorylated and activated by a MAPK kinase kinase
(MAP3K or MKKK). Each cascade is activated either by a
small GTP-binding protein or by an adaptor protein,
which transmits the signal either directly to a MAP3K to
start the triple kinase core cascade or indirectly
through a mediator kinase, a MAP4K. There are three main
typical MAPK subfamilies: Extracellular signal-Regulated
Kinase (ERK), c-Jun N-terminal Kinase (JNK), and p38.
Some MAPKs are atypical in that they are not regulated
by MAP2Ks. These include MAPK4, MAPK6, NLK, and ERK7.
Length = 330
Score = 29.4 bits (67), Expect = 3.6
Identities = 30/119 (25%), Positives = 40/119 (33%), Gaps = 45/119 (37%)
Query: 180 HQKEK-FDVIVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTDLGRLTAPSLLKLVDE 238
Q +V+ G EE L+ I S KAR YLK L +K L KL
Sbjct: 214 DQLNLIVEVL---GTPSEEDLKFIT-SEKARNYLKSLPKKPKK---------PLSKLFPG 260
Query: 239 ALSISGRRPLLNGNTSAEIWDAMDRMLERGSSALAEPHKFGCFLVMNPNNRTSVNSALR 297
A S E D +++ML V +P R + + AL
Sbjct: 261 A--------------SPEAIDLLEKML-----------------VFDPKKRITADEALA 288
>gnl|CDD|227359 COG5026, COG5026, Hexokinase [Carbohydrate transport and
metabolism].
Length = 466
Score = 29.7 bits (67), Expect = 3.8
Identities = 20/94 (21%), Positives = 32/94 (34%), Gaps = 9/94 (9%)
Query: 326 ERVRKNFSPLPLSFLPHLPTDSSLDWNTIMLNPAGKEARDLLSLQAKRSSSLMSSVKFDA 385
E + K P FLP +PT W + P G E+ +L++ ++ + V
Sbjct: 44 EELEKGLQPKSGDFLPMIPT-----W--VAPLPTGNESGSVLAIDLGGTNLRVCLVVLGG 96
Query: 386 AKKSVTLLMPGFDKSEIKLYQYRGGSELLVEAGD 419
F E + + R EL D
Sbjct: 97 DGTFDIEQSKSFLPVECRDSESR--DELFGFIAD 128
>gnl|CDD|179433 PRK02496, adk, adenylate kinase; Provisional.
Length = 184
Score = 28.9 bits (65), Expect = 3.8
Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 49 TTLITFLGKGGSGKTTSAVFAAQHYAMAGLST 80
T LI FLG G+GK T AV A+H + +ST
Sbjct: 2 TRLI-FLGPPGAGKGTQAVVLAEHLHIPHIST 32
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 28.8 bits (65), Expect = 4.3
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 51 LITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
I G G+GKTT A + G+ L
Sbjct: 5 FIVIEGIDGAGKTTQAELLKERLEERGIKVVLT 37
>gnl|CDD|193567 cd08021, M28_like_5, M28 Zn-Peptidase IAP aminopeptidase may
contain PA domain insert. Peptidase family M28 (also
called aminopeptidase Y family), uncharacterized
subfamily. The M28 family contains aminopeptidases as
well as carboxypeptidases. They have co-catalytic zinc
ions; each zinc ion is tetrahedrally co-ordinated, with
three amino acid ligands plus activated water; one
aspartate residue binds both metal ions. This subfamily
is composed of uncharacterized proteins that do not
contain a protease-associated (PA) domain.
Length = 277
Score = 29.1 bits (66), Expect = 4.6
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 13/70 (18%)
Query: 159 IFSAFALERLVGFFGN--FAQR-NHQKEKFDVIVYDGISPEETLRMIGVSSKARLYLKYL 215
IF+AF+ E G G+ A++ Q VY + E MIGV K Y Y+
Sbjct: 124 IFAAFSAEEK-GLLGSKHLAKKLKAQNID----VYAMFNIE----MIGVPMKFGDYTAYI 174
Query: 216 RNVAEKTDLG 225
EK++L
Sbjct: 175 TGY-EKSNLA 183
>gnl|CDD|239385 cd03111, CpaE_like, This protein family consists of proteins
similar to the cpaE protein of the Caulobacter pilus
assembly and the orf4 protein of Actinobacillus pilus
formation gene cluster. The function of these proteins
are unkown. The Caulobacter pilus assembly contains 7
genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF.
These genes are clustered together on chromosome.
Length = 106
Score = 27.7 bits (62), Expect = 5.0
Identities = 15/35 (42%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 51 LITFLG-KGGSGKTTSAV-FAAQHYAMAGLSTCLV 83
+I F+G KGG G TT A A AG LV
Sbjct: 1 VIAFIGAKGGVGATTLAANLAVALAKEAGRRVLLV 35
>gnl|CDD|235858 PRK06762, PRK06762, hypothetical protein; Provisional.
Length = 166
Score = 28.4 bits (64), Expect = 5.1
Identities = 19/40 (47%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 49 TTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQD 88
TTLI G GSGKTT A + G T LV SQD
Sbjct: 2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLV--SQD 36
>gnl|CDD|239794 cd04261, AAK_AKii-LysC-BS, AAK_AKii-LysC-BS: Amino Acid Kinase
Superfamily (AAK), AKii; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the
lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, and the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related sequences. In B. subtilis 168,
the regulation of the diaminopimelate (Dap)-lysine
biosynthetic pathway involves dual control by Dap and
lysine, effected through separate Dap- and
lysine-sensitive aspartokinase isoenzymes. The B.
subtilis 168 AKII is induced by methionine, and
repressed and inhibited by lysine. Although
Corynebacterium glutamicum is known to contain a single
aspartokinase isoenzyme type, both the succinylase and
dehydrogenase variant pathways of DAP-lysine synthesis
operate simultaneously in this organism. In this
organism and other various Gram-positive bacteria, the
DAP-lysine pathway is feedback regulated by the
concerted action of lysine and theronine. Also included
in this CD are the aspartokinases of the extreme
thermophile, Thermus thermophilus HB27, the
Gram-negative obligate methylotroph, Methylophilus
methylotrophus AS1, and those single aspartokinases
found in Pseudomons, C. glutamicum, and Amycolatopsis
lactamdurans. B. subtilis 168 AKII, and the C.
glutamicum, Streptomyces clavuligerus and A.
lactamdurans aspartokinases are described as tetramers
consisting of two alpha and two beta subunits; the alpha
(44 kD) and beta (18 kD) subunits formed by two in-phase
overlapping polypeptides.
Length = 239
Score = 28.7 bits (65), Expect = 5.1
Identities = 25/73 (34%), Positives = 32/73 (43%), Gaps = 14/73 (19%)
Query: 3 SVSVVSSQVP-LTSFHHLKGRRKS-RSRRPRAM------PISASDAGTDENDKSTTLITF 54
++S+ Q LT HH K R R R + I A G +E+ TTL
Sbjct: 90 AISLTGWQAGILTDGHHGKARIIDIDPDRIRELLEEGDVVIVAGFQGINEDGDITTL--- 146
Query: 55 LGKGGSGKTTSAV 67
G+GGS TSAV
Sbjct: 147 -GRGGS--DTSAV 156
>gnl|CDD|129286 TIGR00182, plsX, fatty acid/phospholipid synthesis protein PlsX.
This protein of fatty acid/phospholipid biosynthesis,
called PlsX after the member in Streptococcus
pneumoniae, is proposed to be a phosphate
acyltransferase that partners with PlsY (TIGR00023) in a
two-step 1-acylglycerol-3-phosphate biosynthesis pathway
alternative to the one-step PlsB (EC 2.3.1.15) pathway
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 322
Score = 29.0 bits (65), Expect = 5.2
Identities = 26/97 (26%), Positives = 40/97 (41%), Gaps = 9/97 (9%)
Query: 146 VGEELGVLPGMDSIFSAFAL---ERLVGFFGNFAQRNHQKEKFDVIVYDGISPEETLR-M 201
+G E G D F L + + F GN R+ DV+V DG + L+ M
Sbjct: 170 IGTE--DNKGNDLHKETFQLLKEDPNINFIGNVEARDLLDGVCDVLVCDGFTGNVVLKTM 227
Query: 202 IGVSSKARLYLKYLRNVAEKTDLGRLTAPSLLKLVDE 238
GV A+ L L++ + T +L A L ++
Sbjct: 228 EGV---AKTILSILKDEYKSTLRSKLAALFLKPILKS 261
>gnl|CDD|107201 PHA02519, PHA02519, plasmid partition protein SopA; Reviewed.
Length = 387
Score = 29.2 bits (65), Expect = 5.2
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 57 KGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTA 91
KGG KT+SAV AQ A+ G L++ DP
Sbjct: 115 KGGVYKTSSAVHTAQWLALQGHRV-LLIEGNDPQG 148
>gnl|CDD|238071 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 679
Score = 29.2 bits (66), Expect = 5.2
Identities = 22/87 (25%), Positives = 32/87 (36%), Gaps = 15/87 (17%)
Query: 17 HHLKGRRKSRSRRP--------RAMPISASDAGTDENDKSTTLITFLGKGGSGKTTSAVF 68
K R KSRS P RA + D ++S I G+ G+GKT +
Sbjct: 53 TIRKYRGKSRSELPPHVFAIADRAY----RNMLRDRRNQS---IIISGESGAGKTENTKL 105
Query: 69 AAQHYAMAGLSTCLVLHSQDPTAEYIL 95
++ A S + + A IL
Sbjct: 106 IMKYLASLAGSNDTGIEEKILAANPIL 132
>gnl|CDD|238990 cd02033, BchX, Chlorophyllide reductase converts chlorophylls
into bacteriochlorophylls by reducing the chlorin
B-ring. This family contains the X subunit of this
three-subunit enzyme. Sequence and structure similarity
between bchX, protochlorophyllide reductase L subunit
(bchL and chlL) and nitrogenase Fe protein (nifH gene)
suggest their functional similarity. Members of the
BchX family serve as the unique electron donors to
their respective catalytic subunits (bchN-bchB,
bchY-bchZ and nitrogenase component 1).
Mechanistically, they hydrolyze ATP and transfer
electrons through a Fe4-S4 cluster.
Length = 329
Score = 28.8 bits (64), Expect = 5.4
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 42 TDENDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAE 92
T K T +I GKGG GK S A Y MA ++L DP ++
Sbjct: 24 TAPPTKKTQIIAIYGKGGIGK--SFTLANLSYMMAQQGKRVLLIGCDPKSD 72
>gnl|CDD|237574 PRK13976, PRK13976, thymidylate kinase; Provisional.
Length = 209
Score = 28.5 bits (64), Expect = 5.5
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 52 ITFLGKGGSGKTTSAVFAAQHY 73
ITF G GSGKTT + A++
Sbjct: 3 ITFEGIDGSGKTTQSRLLAEYL 24
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 29.0 bits (66), Expect = 5.6
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 44 ENDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
I +G GSGKTT+A A+++ GL LV
Sbjct: 90 VLPLKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLV 129
>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 28.3 bits (64), Expect = 5.8
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 49 TTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
+I +G GSGKTT+ A + G LV
Sbjct: 1 PNVILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLV 35
>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 29.0 bits (66), Expect = 6.1
Identities = 15/39 (38%), Positives = 20/39 (51%)
Query: 45 NDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
K T+I +G GSGKTT+A A++ G LV
Sbjct: 96 AKKPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLV 134
>gnl|CDD|225676 COG3134, COG3134, Predicted outer membrane lipoprotein [Function
unknown].
Length = 179
Score = 28.3 bits (63), Expect = 6.2
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 141 VLGGVVGEELGVLPGMDSIFSAFALERLVGFFGNFAQRNHQ 181
V GGV+G + G G D A AL G+ GN Q + Q
Sbjct: 79 VAGGVIGHQFGGGRGKDVATVAGALGG--GYAGNQVQGSMQ 117
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a
wide variety of presumed DNA repair proteins.
Length = 154
Score = 28.0 bits (63), Expect = 6.7
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 50 TLITFLGKGGSGKTTSAVFAAQHYA 74
L G G+GK+T A+ A A
Sbjct: 34 GLTLLAGAPGTGKSTLALDLAAAVA 58
>gnl|CDD|239389 cd03115, SRP, The signal recognition particle (SRP) mediates the
transport to or across the plasma membrane in bacteria
and the endoplasmic reticulum in eukaryotes. SRP
recognizes N-terminal sighnal sequences of newly
synthesized polypeptides at the ribosome. The
SRP-polypeptide complex is then targeted to the
membrane by an interaction between SRP and its cognated
receptor (SR). In mammals, SRP consists of six protein
subunits and a 7SL RNA. One of these subunits is a 54
kd protein (SRP54), which is a GTP-binding protein that
interacts with the signal sequence when it emerges from
the ribosome. SRP54 is a multidomain protein that
consists of an N-terminal domain, followed by a central
G (GTPase) domain and a C-terminal M domain.
Length = 173
Score = 27.9 bits (63), Expect = 7.7
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 50 TLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
T+I +G G GKTT+A A + G LV
Sbjct: 1 TVILLVGLQGVGKTTTAAKLALYLKKKGKKVLLV 34
>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is
unkown. It contains nucleotide binding site. It uses
NTP as energy source to transfer electron or ion.
Length = 179
Score = 27.6 bits (62), Expect = 9.1
Identities = 11/16 (68%), Positives = 13/16 (81%), Gaps = 1/16 (6%)
Query: 56 GKGGSGKTT-SAVFAA 70
GKGG+GKTT +A AA
Sbjct: 7 GKGGTGKTTVTAALAA 22
>gnl|CDD|219190 pfam06821, Ser_hydrolase, Serine hydrolase. Members of this family
have serine hydrolase activity. They contain a conserved
serine hydrolase motif, GXSXG/A, where the serine is a
putative nucleophile. This family has an alpha-beta
hydrolase fold. Eukaryotic members of this family have a
conserved LXCXE motif, which binds to retinoblastomas.
This motif is absent from prokaryotic members of this
family.
Length = 171
Score = 27.6 bits (62), Expect = 9.3
Identities = 23/92 (25%), Positives = 32/92 (34%), Gaps = 23/92 (25%)
Query: 256 EIWDAMDRMLERGSSALAEP-----HKFGCFLVMNPNNRTSVNSALRYWGCTIQAGAQVA 310
+ W A L +A P H GC V + A Q A+VA
Sbjct: 40 DDWVAA---LSAAVAAAPGPVVLVAHSLGCLAV--------AHWAEP------QLRAKVA 82
Query: 311 GAICTASPHLDEESAERVR-KNFSPLPLSFLP 341
GA+ A ++ + F+PLP LP
Sbjct: 83 GALLVAPADVEPSAPRPAALATFAPLPRDPLP 114
>gnl|CDD|178238 PLN02631, PLN02631, ferric-chelate reductase.
Length = 699
Score = 28.5 bits (63), Expect = 9.8
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 331 NFSPLPLSFLPHLPTDSSLDWNTIMLNPAGKEARDLLSLQAKRSSS 376
+++P + FL H+P+ S L W+ + + +D LS+ +R S
Sbjct: 334 HYTPTSILFL-HVPSISKLQWHPFTITSSSNLEKDTLSVVIRRQGS 378
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
0.318 0.133 0.383
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,523,998
Number of extensions: 2175573
Number of successful extensions: 2426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2420
Number of HSP's successfully gapped: 69
Length of query: 449
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 349
Effective length of database: 6,502,202
Effective search space: 2269268498
Effective search space used: 2269268498
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.2 bits)