RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 015335
(408 letters)
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 234 bits (599), Expect = 8e-70
Identities = 92/202 (45%), Positives = 129/202 (63%), Gaps = 2/202 (0%)
Query: 209 ETEAVDKDKTKKAVGDKEAGQEKKKSSET-AAVDKDKELSVSLLNIQVGLIRKSWKHPSA 267
+ + K K + Q KK + ++E+ VS L+I+VGLI K+ KHP A
Sbjct: 600 AKKLAKQLKKKALSDGGKKKQGKKAGGGGKSKAAAEREIDVSRLDIRVGLIVKAEKHPDA 659
Query: 268 DSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPGKLRDVMSEGLVLCAS 327
DSL VEEIDVGE R VVSGL KY +++ NR+V ++ N+KP +R + S+ +VL AS
Sbjct: 660 DSLYVEEIDVGEGAPRTVVSGLVKYIPLEEMQNRKVCVLCNLKPAAMRGIKSQAMVLAAS 719
Query: 328 NEDHTNVEPLLPPEGAKIGERISFSGIDGKPEEVLNPKKKQLEKITPNLFTDDKGVATFK 387
N DHT VE + PPE A +GER++F G +G+P++VLNPKKK E + P+L T+ + VA +K
Sbjct: 720 NSDHTKVELVEPPESAAVGERVTFPGFEGEPDDVLNPKKKVWETLQPDLHTNSELVACYK 779
Query: 388 GIPFMTSAGPC-TSSIPKASIK 408
+PF TSAG C +SI SI+
Sbjct: 780 DVPFTTSAGVCKVASIANGSIR 801
>gnl|CDD|239198 cd02799, tRNA_bind_EMAP-II_like, tRNA-binding-domain-containing
EMAP2-like proteins. This family contains a diverse
fraction of tRNA binding proteins, including
Caenorhabditis elegans methionyl-tRNA synthetase
(CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS),
Saccharomyces cerevisiae Arc1p, human p43 and EMAP2.
CeMetRS and hTyrRS aminoacylate their cognate tRNAs.
Arc1p is a transactivator of yeast methionyl-tRNA and
glutamyl-tRNA synthetases. This domain has general tRNA
binding properties. In a subset of this family this
domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. A EMAP-II-like
cytokine also is released from hTyrRS upon cleavage. The
active cytokine heptapeptide locates to this domain.
Length = 105
Score = 168 bits (427), Expect = 1e-51
Identities = 58/105 (55%), Positives = 75/105 (71%)
Query: 246 LSVSLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVAL 305
+ S L+I+VG I K KHP ADSL VEEID+GE + R +VSGL K+ + + NR V +
Sbjct: 1 VDPSRLDIRVGKILKVRKHPDADSLYVEEIDLGEEEPRTIVSGLVKFVPLEQMQNRLVVV 60
Query: 306 ITNVKPGKLRDVMSEGLVLCASNEDHTNVEPLLPPEGAKIGERIS 350
+ N+KP K+R V S+G+VLCASN DH VE L PPEGAK GER++
Sbjct: 61 LCNLKPRKMRGVKSQGMVLCASNADHEKVELLEPPEGAKPGERVT 105
>gnl|CDD|239066 cd02153, tRNA_bindingDomain, The tRNA binding domain is also known
as the Myf domain in literature. This domain is found in
a diverse collection of tRNA binding proteins, including
prokaryotic phenylalanyl tRNA synthetases (PheRS),
methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA
synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p,
Thermus thermophilus CsaA, Aquifex aeolicus Trbp111,
human p43 and human EMAP-II. PheRS, MetRS and hTyrRS
aminoacylate their cognate tRNAs. Arc1p is a
transactivator of yeast methionyl-tRNA and glutamyl-tRNA
synthetases. The molecular chaperones Trbp111 and CsaA
also contain this domain. CsaA has export related
activities; Trbp111 is structure-specific recognizing
the L-shape of the tRNA fold. This domain has general
tRNA binding properties. In a subset of this family
this domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. An
EMAP-II-like cytokine is released from hTyrRS upon
cleavage. The active cytokine heptapeptide locates to
this domain. For homodimeric members of this group which
include CsaA, Trbp111 and Escherichia coli MetRS this
domain acts as a dimerization domain.
Length = 99
Score = 118 bits (298), Expect = 1e-32
Identities = 42/99 (42%), Positives = 62/99 (62%), Gaps = 2/99 (2%)
Query: 253 IQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPG 312
++VG I ++ HP+AD L V ++D+GE K RQ+VSG A P++L ++V + N+KP
Sbjct: 1 LRVGKIVEAEPHPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPK 60
Query: 313 KLRDVMSEGLVLCASNED--HTNVEPLLPPEGAKIGERI 349
KLR V SEG++L A +V L PE A +G+RI
Sbjct: 61 KLRGVESEGMLLSAEELGLEEGSVGILELPEDAPVGDRI 99
>gnl|CDD|216589 pfam01588, tRNA_bind, Putative tRNA binding domain. This domain is
found in prokaryotic methionyl-tRNA synthetases,
prokaryotic phenylalanyl tRNA synthetases the yeast GU4
nucleic-binding protein (G4p1 or p42, ARC1), human
tyrosyl-tRNA synthetase, and endothelial-monocyte
activating polypeptide II. G4p1 binds specifically to
tRNA form a complex with methionyl-tRNA synthetases. In
human tyrosyl-tRNA synthetase this domain may direct
tRNA to the active site of the enzyme. This domain may
perform a common function in tRNA aminoacylation.
Length = 95
Score = 105 bits (265), Expect = 4e-28
Identities = 41/96 (42%), Positives = 60/96 (62%), Gaps = 1/96 (1%)
Query: 253 IQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPG 312
++VG + ++ KHP+AD LLV ++DVGE + RQ+VSG P++L + V ++ N+KP
Sbjct: 1 LRVGKVLEAEKHPNADKLLVLKVDVGEEE-RQIVSGAVNVYPPEELVGKLVVVVANLKPA 59
Query: 313 KLRDVMSEGLVLCASNEDHTNVEPLLPPEGAKIGER 348
KLR V SEG++L A D +V L PP G R
Sbjct: 60 KLRGVESEGMILSAEELDGGSVGLLEPPGDVPPGTR 95
>gnl|CDD|198337 cd10304, GST_C_Arc1p_N_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of the Aminoacyl
tRNA synthetase cofactor 1 and similar proteins.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl tRNA synthetase cofactor 1
(Arc1p)-like subfamily; Arc1p, also called GU4 nucleic
binding protein 1 (G4p1) or p42, is a
tRNA-aminoacylation and nuclear-export cofactor. It
contains a domain in the N-terminal region with
similarity to the C-terminal alpha helical domain of
GSTs. This domain mediates the association of the
aminoacyl tRNA synthetases (aaRSs), MetRS and GluRS, in
yeast to form a stable stoichiometric ternany complex.
The GST_C-like domain of Arc1p is a protein-protein
interaction domain containing two binding sites which
enable it to bind the two aaRSs simultaneously and
independently. The MetRS-Arc1p-GluRS complex selectively
recruits and aminoacylates its cognate tRNAs without
additional cofactors. Arc1p also plays a role in the
transport of tRNA from the nucleus to the cytoplasm. It
may also control the subcellular distribution of GluRS
in the cytoplasm, nucleoplasm, and the mitochondrial
matrix.
Length = 100
Score = 99.0 bits (247), Expect = 2e-25
Identities = 34/102 (33%), Positives = 51/102 (50%), Gaps = 5/102 (4%)
Query: 52 KSSNDEVMKWIEFAESFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVH 111
+ EV +W+ A+S P SK + L +LN L T++ LLG G + S ADV VF AV
Sbjct: 1 PEQSAEVAQWLSVAKSGPV-SKDVQETLGQLNLHLRTRTFLLGTG-KPSVADVAVFEAVL 58
Query: 112 SFVVGLANL---DQGKMPHVMRWMDYIQSKEALGDLFGTISL 150
V ++ K H++RW+DY+Q+ I +
Sbjct: 59 PVVKEWSDEVKTGYAKYRHILRWVDYVQNLLLFIPEADKIEV 100
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 97.5 bits (244), Expect = 7e-22
Identities = 40/147 (27%), Positives = 74/147 (50%), Gaps = 9/147 (6%)
Query: 208 VETEAVDK--DKTKKAVGDKEAGQEKKKSSETAAVDKDKELSVSL---LNIQVGLIRKSW 262
+E + ++ + +K+A ++ A + +S ++++V I ++
Sbjct: 530 IEDKQIEALIEASKEA--AAAKAAAAAAAAPLAEEPIAETISFDDFAKVDLRVAKIVEAE 587
Query: 263 KHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPGKLRDVMSEGL 322
K AD LL +D+GE RQV SG+ +P++L + V ++ N+ P K++ +SEG+
Sbjct: 588 KVEGADKLLKLTLDLGEET-RQVFSGIKSAYDPEELVGKLVVMVANLAPRKMKFGVSEGM 646
Query: 323 VLCASNEDHTNVEPLLPPEGAKIGERI 349
VL A ++ L P EGAK G R+
Sbjct: 647 VLAAGPGG-GDLFLLEPDEGAKPGMRV 672
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 94.5 bits (236), Expect = 7e-21
Identities = 41/171 (23%), Positives = 85/171 (49%), Gaps = 11/171 (6%)
Query: 186 PSNLKSGDAKKGDTALQEKKKSVETEA----VDKDKTKKAVGDKEAGQEKKKSSETAAVD 241
L S ++ L K + E +D ++ + ++ G K+ E
Sbjct: 479 EEELTSWESLLEWGGLPAGTKVAKGEPLFPRIDVEEEIAYIKEQMEGSAPKEPEEKEKKP 538
Query: 242 KDKELSV---SLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDL 298
+ E+++ + ++V + ++ K +D LL ++D+GE + RQ+VSG+AK+ P++L
Sbjct: 539 EKPEITIDDFDKVELRVAEVLEAEKVEKSDKLLKLQVDLGEEEPRQIVSGIAKFYPPEEL 598
Query: 299 TNRRVALITNVKPGKLRDVMSEGLVLCASNEDH---TNVEPLLPPEGAKIG 346
++V ++ N+KP KL S+G++L A ++ V+ +P G+K+
Sbjct: 599 VGKKVVVVANLKPAKLMGEESQGMILAAEDDGKLTLLTVDKEVPN-GSKVK 648
>gnl|CDD|239199 cd02800, tRNA_bind_EcMetRS_like, tRNA-binding-domain-containing
Escherichia coli methionyl-tRNA synthetase
(EcMetRS)-like proteins. This family includes EcMetRS
and Aquifex aeolicus Trbp111 (AaTrbp111). This domain
has general tRNA binding properties. MetRS
aminoacylates methionine transfer RNAs (tRNAmet).
AaTrbp111 is structure-specific molecular chaperone
recognizing the L-shape of the tRNA fold. AaTrbp111
plays a role in nuclear trafficking of tRNAs. The
functional unit of EcMetRs and AaTrbp111 is a homodimer,
this domain acts as the dimerization domain.
Length = 105
Score = 84.9 bits (211), Expect = 3e-20
Identities = 35/100 (35%), Positives = 65/100 (65%), Gaps = 3/100 (3%)
Query: 251 LNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVK 310
++++VG + ++ + +D LL +D+GE + RQ+VSG+AK+ P++L ++V ++ N+K
Sbjct: 9 VDLRVGKVLEAERVEGSDKLLKLTVDLGEEE-RQIVSGIAKFYPPEELVGKKVVVVANLK 67
Query: 311 PGKLRDVMSEGLVLCASNEDHTNVEPLLPPEGAKIGERIS 350
P KLR V S+G++L A + ++ L P E + G R+S
Sbjct: 68 PRKLRGVESQGMILAAEDGG--KLKLLTPDEEVEPGSRVS 105
>gnl|CDD|232958 TIGR00399, metG_C_term, methionyl-tRNA synthetase C-terminal
region/beta chain. The methionyl-tRNA synthetase (metG)
is a class I amino acyl-tRNA ligase. This model
describes a region of the methionyl-tRNA synthetase that
is present at the C-terminus of MetG in some species (E.
coli, B. subtilis, Thermotoga maritima, Methanobacterium
thermoautotrophicum), and as a separate beta chain in
Aquifex aeolicus. It is absent in a number of other
species (e.g. Mycoplasma genitalium, Mycobacterium
tuberculosis), while Pyrococcus horikoshii has both a
full length MetG and a second protein homologous to the
beta chain only. Proteins hit by This model should
called methionyl-tRNA synthetase beta chain if and only
if the model metG hits a separate protein not also hit
by This model [Protein synthesis, tRNA aminoacylation].
Length = 137
Score = 82.1 bits (203), Expect = 6e-19
Identities = 46/138 (33%), Positives = 80/138 (57%), Gaps = 8/138 (5%)
Query: 216 DKTKKAVGDKEAGQEKKKSSETAAVDKDKELSVSL---LNIQVGLIRKSWKHPSADSLLV 272
++ K K +EKK E A + + +++ ++++VG I K+ + +D LL
Sbjct: 5 EELKLKGAKK---KEKKDEGEKALEPQKETITIDDFEKVDLRVGKILKAERVEKSDKLLK 61
Query: 273 EEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPGKLRDVMSEGLVLCASNEDHT 332
++D+G+ K RQ+VSG+A Y P++L ++V ++ N+KP KL V SEG++L A+ +D
Sbjct: 62 LKLDLGDEK-RQIVSGIAGYYTPEELVGKKVIVVANLKPAKLFGVKSEGMIL-AAEDDGK 119
Query: 333 NVEPLLPPEGAKIGERIS 350
+ L P + A GERI
Sbjct: 120 VLFLLSPDQEAIAGERIK 137
>gnl|CDD|223151 COG0073, ARC1, EMAP domain [General function prediction only].
Length = 123
Score = 74.3 bits (183), Expect = 3e-16
Identities = 34/107 (31%), Positives = 59/107 (55%), Gaps = 6/107 (5%)
Query: 249 SLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAK-LRQVVSGLAKYCNPDDLTNRRVALIT 307
+ ++++VG + ++ HP+AD LLV ++D+G+ K RQ+V G + + L +V +
Sbjct: 17 AKVDLRVGKVVEAEPHPNADKLLVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKVGAVL 76
Query: 308 N---VKPGKLRDVMSEGLVLCASNEDHTNVEP--LLPPEGAKIGERI 349
N +KP KLR V SEG++L A ++ L EG G ++
Sbjct: 77 NGGKLKPAKLRGVESEGMLLSAEELGLSDENVGILTLDEGVPPGTKV 123
>gnl|CDD|239197 cd02798, tRNA_bind_CsaA, tRNA-binding-domain-containing CsaA-like
proteins. CsaA is a molecular chaperone with export
related activities. CsaA has a putative tRNA binding
activity. The functional unit of CsaA is a homodimer and
this domain acts as a dimerization domain.
Length = 107
Score = 72.7 bits (179), Expect = 7e-16
Identities = 29/100 (29%), Positives = 51/100 (51%), Gaps = 2/100 (2%)
Query: 251 LNIQVGLIRKSWKHPSA-DSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNV 309
++++VG I + P A ++D GE ++Q + + KY P++L R+V + N
Sbjct: 9 VDLRVGTIVEVEDFPEARKPAYKLKVDFGEIGVKQSSAQITKYYKPEELIGRQVVAVVNF 68
Query: 310 KPGKLRDVMSEGLVLCASNEDHTNVEPLLPPEGAKIGERI 349
P ++ V+SE LVL A +E V L+P G ++
Sbjct: 69 PPKQIAGVLSEVLVLGADDEG-GEVVLLVPDREVPNGAKV 107
>gnl|CDD|198322 cd10289, GST_C_AaRS_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of various
Aminoacyl-tRNA synthetases and similar domains.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl-tRNA synthetase (AaRS)-like subfamily;
This model characterizes the GST_C-like domain found in
the N-terminal region of some eukaryotic AaRSs, as well
as similar domains found in proteins involved in protein
synthesis including Aminoacyl tRNA synthetase
complex-Interacting Multifunctional Protein 2 (AIMP2),
AIMP3, and eukaryotic translation Elongation Factor 1
beta (eEF1b). AaRSs comprise a family of enzymes that
catalyze the coupling of amino acids with their matching
tRNAs. This involves the formation of an aminoacyl
adenylate using ATP, followed by the transfer of the
activated amino acid to the 3'-adenosine moiety of the
tRNA. AaRSs may also be involved in translational and
transcriptional regulation, as well as in tRNA
processing. AaRSs in this subfamily include GluRS from
lower eukaryotes, as well as GluProRS, MetRS, and CysRS
from higher eukaryotes. AIMPs are non-enzymatic
cofactors that play critical roles in the assembly and
formation of a macromolecular multi-tRNA synthetase
protein complex found in higher eukaryotes. The
GST_C-like domain is involved in protein-protein
interactions, mediating the formation of aaRS complexes
such as the MetRS-Arc1p-GluRS ternary complex in lower
eukaryotes and the multi-aaRS complex in higher
eukaryotes, that act as molecular hubs for protein
synthesis. AaRSs from prokaryotes, which are active as
dimers, do not contain this GST_C-like domain.
Length = 82
Score = 67.0 bits (164), Expect = 4e-14
Identities = 29/82 (35%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 57 EVMKWIEFAESFPADSKACFDVLIK-LNEELATKSVLLGNGLRTSEADVIVFSAVHSFVV 115
+V +W++ A S + + L+K LN LA+++ L+G L + ADV VFSA++
Sbjct: 4 QVDQWLDLAGSLLKGKE--LEALLKSLNSYLASRTFLVGYSL--TLADVAVFSALYPSGQ 59
Query: 116 GLANLDQGKMPHVMRWMDYIQS 137
L++ ++ K PHV RW ++IQ+
Sbjct: 60 KLSDKEKKKFPHVTRWFNHIQN 81
>gnl|CDD|198338 cd10305, GST_C_AIMP3, Glutathione S-transferase C-terminal-like,
alpha helical domain of Aminoacyl tRNA synthetase
complex-Interacting Multifunctional Protein 3.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl tRNA synthetase complex-Interacting
Multifunctional Protein (AIMP) 3 subfamily; AIMPs are
non-enzymatic cofactors that play critical roles in the
assembly and formation of a macromolecular multi-tRNA
synthetase protein complex that functions as a molecular
hub to coordinate protein synthesis. There are three
AIMPs, named AIMP1-3, which play diverse regulatory
roles. AIMP3, also called p18 or eukaryotic translation
elongation factor 1 epsilon-1 (EEF1E1), contains a
C-terminal domain with similarity to the C-terminal
alpha helical domain of GSTs. It specifically interacts
with methionyl-tRNA synthetase (MetRS) and is
translocated to the nucleus during DNA synthesis or in
response to DNA damage and oncogenic stress. In the
nucleus, it interacts with ATM and ATR, which are
upstream kinase regulators of p53. It appears to work
against DNA damage in cooperation with AIMP2, and
similar to AIMP2, AIMP3 is also a haploinsufficient
tumor suppressor. AIMP3 transgenic mice have shorter
lifespans than wild-type mice and they show
characteristics of progeria, suggesting that AIMP3 may
also be involved in cellular and organismal aging.
Length = 101
Score = 56.9 bits (138), Expect = 2e-10
Identities = 23/91 (25%), Positives = 50/91 (54%), Gaps = 11/91 (12%)
Query: 57 EVMKWIEFAE------SFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAV 110
+V +W+E+ S AD+K+ +L +LN L ++ L+G+ + + ADV+++ +
Sbjct: 6 QVDQWLEYRVTQVAPASDKADAKS---LLKELNSYLQDRTYLVGH--KLTLADVVLYYGL 60
Query: 111 HSFVVGLANLDQGKMPHVMRWMDYIQSKEAL 141
H + L+ ++ + +V RW D++Q +
Sbjct: 61 HPIMKDLSPQEKEQYLNVSRWFDHVQHLPGI 91
>gnl|CDD|239196 cd02796, tRNA_bind_bactPheRS, tRNA-binding-domain-containing
prokaryotic phenylalanly tRNA synthetase (PheRS) beta
chain. PheRS aminoacylate phenylalanine transfer RNAs
(tRNAphe). PheRSs belong structurally to class II
aminoacyl tRNA synthetases (aaRSs) but, as they
aminoacylate the 2'OH of the terminal ribose of tRNA
they belong functionally to class 1 aaRSs. This domain
has general tRNA binding properties and is believed to
direct tRNAphe to the active site of the enzyme.
Length = 103
Score = 55.6 bits (135), Expect = 7e-10
Identities = 38/109 (34%), Positives = 52/109 (47%), Gaps = 18/109 (16%)
Query: 253 IQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALI------ 306
+ VG + + HP+AD L V ++D+GE K Q+V G A D VAL
Sbjct: 1 VVVGKVLEVEPHPNADKLNVCKVDIGENKPLQIVCG-APNVRAGDKV--VVALPGAVLPG 57
Query: 307 -TNVKPGKLRDVMSEGLVLCASNE-----DHTNVEPLLPPEGAKIGERI 349
+K KLR V SEG+ LC++ E D + L PE A +G I
Sbjct: 58 GLKIKKRKLRGVESEGM-LCSAKELGLGEDSDGIIEL--PEDAPVGTDI 103
>gnl|CDD|232990 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase, beta subunit,
non-spirochete bacterial. Every known example of the
phenylalanyl-tRNA synthetase, except the monomeric form
of mitochondrial, is an alpha 2 beta 2 heterotetramer.
The beta subunits break into two subfamilies that are
considerably different in sequence, length, and pattern
of gaps. This model represents the subfamily that
includes the beta subunit from Bacteria other than
spirochetes, as well as a chloroplast-encoded form from
Porphyra purpurea. The chloroplast-derived sequence is
considerably shorter at the amino end, however, so This
model was built in fragment mode [Protein synthesis,
tRNA aminoacylation].
Length = 797
Score = 59.6 bits (145), Expect = 1e-09
Identities = 43/149 (28%), Positives = 64/149 (42%), Gaps = 28/149 (18%)
Query: 240 VDKDKELSVSLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLT 299
V+ S L + VG + + HP+AD L V ++D+GE ++ Q+V G A
Sbjct: 33 VEAVIPFSKPLKGVVVGKVLEVEPHPNADKLKVCKVDIGEKEMLQIVCG-APNVEAGKKV 91
Query: 300 NRRVALI-------TNVKPGKLRDVMSEGLVLCASNE-----DHTNVEPLLPPEGAKIGE 347
VAL +K KLR V SEG+ LC+ +E + ++ E A +G
Sbjct: 92 --AVALPGAKLPNGLKIKKSKLRGVESEGM-LCSESELGLDEKSDGI--IVLDEDAPLGT 146
Query: 348 RISFSGIDGKPEEVLNPKKKQLE-KITPN 375
I+ E L +E ITPN
Sbjct: 147 DIA---------EYLGLDDDIIEVSITPN 166
>gnl|CDD|182232 PRK10089, PRK10089, tRNA-binding protein; Provisional.
Length = 112
Score = 52.5 bits (127), Expect = 1e-08
Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 9/103 (8%)
Query: 251 LNIQVGLIRKSWKHPSADSL-LVEEIDVG-EAKLRQVVSGLAKYCNPDDLTNRRVALITN 308
++I+VG I ++ P A ID G E ++Q + + + P++L ++V + N
Sbjct: 12 VDIRVGTIVEAEPFPEARKPAYKLWIDFGEEIGVKQSSAQITPHYTPEELIGKQVVAVVN 71
Query: 309 VKPGKLRDVMSEGLVLCASNEDHTNVEPLLPPE-----GAKIG 346
P ++ MSE LVL +ED V LL P+ G K+
Sbjct: 72 FPPKQIAGFMSEVLVLGFEDEDGEVV--LLTPDRPVPNGVKLV 112
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 53.3 bits (129), Expect = 2e-07
Identities = 46/145 (31%), Positives = 67/145 (46%), Gaps = 29/145 (20%)
Query: 244 KELSVSLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRV 303
++++ L + VG + + KHP+AD L V ++DVGE + Q+V G A D V
Sbjct: 36 EDVAAGLSGVVVGKVLECEKHPNADKLRVCQVDVGE-EPLQIVCG-APNVRAGDKV--PV 91
Query: 304 ALI-------TNVKPGKLRDVMSEGLVLCASNE-----DHTNVEPLLPPEGAKIGERISF 351
AL +K KLR V SEG+ LC+++E DH + L PE A +G
Sbjct: 92 ALPGAVLPGGFKIKKAKLRGVESEGM-LCSASELGLSDDHDGIIEL--PEDAPVGTDAR- 147
Query: 352 SGIDGKPEEVLNPKKKQLE-KITPN 375
E L +E +TPN
Sbjct: 148 --------EYLGLDDTVIEISLTPN 164
>gnl|CDD|198341 cd10308, GST_C_eEF1b_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of eukaryotic
translation Elongation Factor 1 beta. Glutathione
S-transferase (GST) C-terminal domain family, eukaryotic
translation Elongation Factor 1 beta (eEF1b) subfamily;
eEF1b is a component of the eukaryotic translation
elongation factor-1 (EF1) complex which plays a central
role in the elongation cycle during protein
biosynthesis. EF1 consists of two functionally distinct
units, EF1A and EF1B. EF1A catalyzes the GTP-dependent
binding of aminoacyl-tRNA to the ribosomal A site
concomitant with the hydrolysis of GTP. The resulting
inactive EF1A:GDP complex is recycled to the active GTP
form by the guanine-nucleotide exchange factor EF1B, a
complex composed of at least two subunits, alpha and
gamma. Metazoan EFB1 contain a third subunit, beta.
eEF1b contains a GST_C-like alpha helical domain at the
N-terminal region and a C-terminal guanine nucleotide
exchange domain. The GST_C-like domain likely functions
as a protein-protein interaction domain, similar to the
function of the GST_C-like domains of EF1Bgamma and
various aminoacyl-tRNA synthetases (aaRSs) from higher
eukaryotes.
Length = 82
Score = 45.5 bits (108), Expect = 2e-06
Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 8/61 (13%)
Query: 77 DVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVHSFVVGLANLDQGKMPHVMRWMDYIQ 136
L LNE LA +S + +G S+ADV VF + D K PH+ RW +I
Sbjct: 29 KGLEALNEYLADRSYI--SGYSPSQADVEVFDKLKK------APDATKFPHLARWYRHIA 80
Query: 137 S 137
S
Sbjct: 81 S 81
>gnl|CDD|198342 cd10309, GST_C_GluProRS_N, Glutathione S-transferase
C-terminal-like, alpha helical domain of bifunctional
Glutamyl-Prolyl-tRNA synthetase. Glutathione
S-transferase (GST) C-terminal domain family,
bifunctional GluRS-Prolyl-tRNA synthetase (GluProRS)
subfamily; This model characterizes the GST_C-like
domain found in the N-terminal region of GluProRS from
higher eukaryotes. Aminoacyl-tRNA synthetases (aaRSs)
comprise a family of enzymes that catalyze the coupling
of amino acids with their matching tRNAs. This involves
the formation of an aminoacyl adenylate using ATP,
followed by the transfer of the activated amino acid to
the 3'-adenosine moiety of the tRNA. AaRSs may also be
involved in translational and transcriptional
regulation, as well as in tRNA processing. The
GST_C-like domain of GluProRS may be involved in
protein-protein interactions, mediating the formation of
the multi-aaRS complex in higher eukaryotes. The
multi-aaRS complex acts as a molecular hub for protein
synthesis. AaRSs from prokaryotes, which are active as
dimers, do not contain this GST_C-like domain.
Length = 81
Score = 45.0 bits (107), Expect = 2e-06
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 57 EVMKWIEFAESFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVHSFVVG 116
EV WI F+ + + L L++ L+ ++ L+GN L + AD V++A+
Sbjct: 4 EVDHWISFSAGRLSCDQDFSSALSYLDKALSLRTYLVGNSL--TLADFAVWAALRGNGEW 61
Query: 117 LANLDQGKMPHVMRWMDYIQS 137
LA+ + K +V RW +I S
Sbjct: 62 LAS--KEKYVNVTRWFKFISS 80
>gnl|CDD|198339 cd10306, GST_C_GluRS_N, Glutathione S-transferase C-terminal-like,
alpha helical domain of Glutamyl-tRNA synthetase.
Glutathione S-transferase (GST) C-terminal domain
family, Glutamyl-tRNA synthetase (GluRS) subfamily; This
model characterizes the GST_C-like domain found in the
N-terminal region of GluRS from lower eukaryotes.
Aminoacyl-tRNA synthetases (aaRSs) comprise a family of
enzymes that catalyze the coupling of amino acids with
their matching tRNAs. This involves the formation of an
aminoacyl adenylate using ATP, followed by the transfer
of the activated amino acid to the 3'-adenosine moiety
of the tRNA. AaRSs may also be involved in translational
and transcriptional regulation, as well as in tRNA
processing. The GST_C-like domain of GluRS is involved
in protein-protein interactions. This domain mediates
the formation of the MetRS-Arc1p-GluRS ternary complex
found in lower eukaryotes, which is considered an
evolutionary intermediate between prokaryotic aaRS and
the multi-aaRS complex found in higher eukaryotes. AaRSs
from prokaryotes, which are active as dimers, do not
contain this GST_C-like domain.
Length = 87
Score = 44.6 bits (106), Expect = 3e-06
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 4/88 (4%)
Query: 52 KSSNDEVMKWIEFAESF--PADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSA 109
++V +WI+FA + D KA L +L+ L ++ ++G L S AD+ V+ A
Sbjct: 1 NGDKEQVAEWIDFATTLLVLKDFKALSQALEELDSHLTLRTFIVGYSL--SLADIAVWGA 58
Query: 110 VHSFVVGLANLDQGKMPHVMRWMDYIQS 137
+ V + + ++ RW +++S
Sbjct: 59 LRGNGVAGSLIKNKVYVNLSRWFSFLES 86
>gnl|CDD|198325 cd10292, GST_C_YghU_like, C-terminal, alpha helical domain of
Escherichia coli Yghu Glutathione S-transferases and
related uncharacterized proteins. Glutathione
S-transferase (GST) C-terminal domain family, YghU-like
subfamily; composed of the Escherichia coli YghU and
related proteins. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain. YghU is one of nine GST homologs in
the genome of Escherichia coli. It is similar to
Escherichia coli YfcG in that it has poor GSH
transferase activity towards typical substrates. It
shows modest reductase activity towards some organic
hydroperoxides. Like YfcG, YghU also shows good
disulfide bond oxidoreductase activity comparable to the
activities of glutaredoxins and thioredoxins. YghU does
not contain a redox active cysteine residue, and may use
a bound thiol disulfide couple such as 2GSH/GSSG for
activity. The crystal structure of YghU reveals two GSH
molecules bound in its active site.
Length = 118
Score = 37.8 bits (88), Expect = 0.002
Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 11/86 (12%)
Query: 62 IEFA-ESFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVHSFVVGLAN- 119
IE+A + F ++K DVL + +LAT L G+ + AD+ ++ +G
Sbjct: 34 IEYAIDRFTMEAKRQLDVL---DRQLATHKYLAGD--EYTIADMAIWPWYGGLALGSLYD 88
Query: 120 ----LDQGKMPHVMRWMDYIQSKEAL 141
LD + HV RW I ++ A+
Sbjct: 89 AAEFLDVDEYKHVQRWAKDIAARPAV 114
>gnl|CDD|131277 TIGR02222, chap_CsaA, export-related chaperone protein CsaA. This
model describes Bacillus subtilis CsaA, an
export-related chaperone that interacts with the Sec
system, and related proteins from a number of other
bacteria and archaea. The crystal structure is known for
the homodimer from Thermus thermophilus [Protein fate,
Protein folding and stabilization, Protein fate, Protein
and peptide secretion and trafficking].
Length = 107
Score = 35.9 bits (83), Expect = 0.006
Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 7/102 (6%)
Query: 251 LNIQVGLIRKSWKHPSA-DSLLVEEIDVG-EAKLRQVVSGLAKYCNPDDLTNRRVALITN 308
L+++VG I ++ P A +D G E ++Q + + K P+DL R V + N
Sbjct: 7 LDLRVGRIVRAEPFPEARKPAYKLWVDFGTEIGVKQSSAQITKLYKPEDLIGRLVVAVVN 66
Query: 309 VKPGKLRDVMSEGLVLCASNEDHTNVEPLLP----PEGAKIG 346
P ++ +SE LVL + + V L P P G KI
Sbjct: 67 FPPKQIAGFLSEVLVLGVID-EQGRVVLLQPDRPVPNGTKIA 107
>gnl|CDD|198290 cd03181, GST_C_EF1Bgamma_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of the Gamma
subunit of Elongation Factor 1B and similar proteins.
Glutathione S-transferase (GST) C-terminal domain
family, Gamma subunit of Elongation Factor 1B
(EF1Bgamma) subfamily; EF1Bgamma is part of the
eukaryotic translation elongation factor-1 (EF1) complex
which plays a central role in the elongation cycle
during protein biosynthesis. EF1 consists of two
functionally distinct units, EF1A and EF1B. EF1A
catalyzes the GTP-dependent binding of aminoacyl-tRNA to
the ribosomal A site concomitant with the hydrolysis of
GTP. The resulting inactive EF1A:GDP complex is recycled
to the active GTP form by the guanine-nucleotide
exchange factor EF1B, a complex composed of at least two
subunits, alpha and gamma. Metazoan EFB1 contain a third
subunit, beta. The EF1B gamma subunit contains a GST
fold consisting of an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain. The GST-like
domain of EF1Bgamma is believed to mediate the
dimerization of the EF1 complex, which in yeast is a
dimer of the heterotrimer EF1A:EF1Balpha:EF1Bgamma. In
addition to its role in protein biosynthesis, EF1Bgamma
may also display other functions. The recombinant rice
protein has been shown to possess GSH conjugating
activity. The yeast EF1Bgamma binds to membranes in a
calcium dependent manner and is also part of a complex
that binds to the msrA (methionine sulfoxide reductase)
promoter suggesting a function in the regulation of its
gene expression. Also included in this subfamily is the
GST_C-like domain at the N-terminus of human valyl-tRNA
synthetase (ValRS) and its homologs. Metazoan ValRS
forms a stable complex with Elongation Factor-1H
(EF-1H), and together, they catalyze consecutive steps
in protein biosynthesis, tRNA aminoacylation and its
transfer to EF.
Length = 123
Score = 35.6 bits (83), Expect = 0.010
Identities = 26/101 (25%), Positives = 40/101 (39%), Gaps = 30/101 (29%)
Query: 57 EVMKWIEFAES----------FP------------ADSKACFDVLIK-LNEELATKSVLL 93
+V++WI FA S P +K + L E L T++ L+
Sbjct: 4 QVLQWISFANSELLPAAATWVLPLLGIAPYNKKAVDKAKEDLKRALGVLEEHLLTRTYLV 63
Query: 94 GNGLRTSEADVIVFSAVH---SFVVGLANLDQGKMPHVMRW 131
G R + AD+ V SA+ V+ + K P+V RW
Sbjct: 64 GE--RITLADIFVASALLRGFETVLDPE--FRKKYPNVTRW 100
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 37.8 bits (88), Expect = 0.010
Identities = 28/135 (20%), Positives = 57/135 (42%), Gaps = 26/135 (19%)
Query: 57 EVMKWIEFAESFPADS---KACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVHSF 113
+V +W+++A +F + S AC ++ LA+++ L+G L + AD+ ++S
Sbjct: 78 QVDEWLDYAPTFSSGSEFENAC----EYVDGYLASRTFLVGYSL--TIADIAIWS----- 126
Query: 114 VVGLANLDQ--------GKMPHVMRWMDYI--QSKEALGDLFGTISLEKPGFEPPLHGAK 163
GLA Q K +++RW + I + + L ++ ++ +P +K
Sbjct: 127 --GLAGSGQRWESLRKSKKYQNLVRWFNSISAEYSDILNEVTAAYVGKRGAGKPAAAKSK 184
Query: 164 SAVDSNAKKTVQSTN 178
V K
Sbjct: 185 EKVADAGKADGAKDK 199
>gnl|CDD|198288 cd03178, GST_C_Ure2p_like, C-terminal, alpha helical domain of
Ure2p and related Glutathione S-transferase-like
proteins. Glutathione S-transferase (GST) C-terminal
domain family, Ure2p-like subfamily; composed of the
Saccharomyces cerevisiae Ure2p, YfcG and YghU from
Escherichia coli, and related GST-like proteins. Ure2p
is a regulator for nitrogen catabolism in yeast. It
represses the expression of several gene products
involved in the use of poor nitrogen sources when rich
sources are available. A transmissible conformational
change of Ure2p results in a prion called [Ure3], an
inactive, self-propagating and infectious amyloid. Ure2p
displays a GST fold containing an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain. The N-terminal thioredoxin-fold domain is
sufficient to induce the [Ure3] phenotype and is also
called the prion domain of Ure2p. In addition to its
role in nitrogen regulation, Ure2p confers protection to
cells against heavy metal ion and oxidant toxicity, and
shows glutathione (GSH) peroxidase activity. YfcG and
YghU are two of the nine GST homologs in the genome of
Escherichia coli. They display very low or no GSH
transferase, but show very good disulfide bond
oxidoreductase activity. YghU also shows modest organic
hydroperoxide reductase activity. GSTs are cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of GSH with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain.
Length = 110
Score = 32.6 bits (75), Expect = 0.095
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 7/80 (8%)
Query: 62 IEFA-ESFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAVHSFVVGLANL 120
I +A E + + K + VL ++ L+ + L G S AD+ ++ H +G
Sbjct: 34 IPYAIERYTDEVKRLYGVL---DKRLSDRPYLAGEEY--SIADIALYPWTHYADLGGFA- 87
Query: 121 DQGKMPHVMRWMDYIQSKEA 140
D + P+V RW++ I ++ A
Sbjct: 88 DLSEYPNVKRWLERIAARPA 107
>gnl|CDD|153183 cd04911, ACT_AKiii-YclM-BS_1, ACT domains located C-terminal to the
catalytic domain of the lysine plus threonine-sensitive
aspartokinase isoenzyme AKIII. This CD includes the
first of two ACT domains located C-terminal to the
catalytic domain of the lysine plus threonine-sensitive
aspartokinase isoenzyme AKIII, a monofunctional class
enzyme found in Bacilli (Bacillus subtilis (BS) YclM)
and Clostridia species. Aspartokinase is the first
enzyme in the aspartate metabolic pathway and catalyzes
the conversion of aspartate and ATP to aspartylphosphate
and ADP. Bacillus subtilis YclM is reported to be a
single polypeptide of 50 kD. AKIII from Bacillus
subtilis strain 168 is induced by lysine and repressed
by threonine and it is synergistically inhibited by
lysine and threonine. Members of this CD belong to the
superfamily of ACT regulatory domains.
Length = 76
Score = 30.7 bits (70), Expect = 0.22
Identities = 15/63 (23%), Positives = 35/63 (55%), Gaps = 14/63 (22%)
Query: 250 LLNIQVGLIRK----------SWKH-PSA-D--SLLVEEIDVGEAKLRQVVSGLAKYCNP 295
L+N +VG RK S++H PS D S+++ + + + K +++++ + + +P
Sbjct: 10 LMNREVGFGRKLLSILEDNGISYEHMPSGIDDISIIIRDNQLTDEKEQKILAEIKEELHP 69
Query: 296 DDL 298
D++
Sbjct: 70 DEI 72
>gnl|CDD|236364 PRK09034, PRK09034, aspartate kinase; Reviewed.
Length = 454
Score = 32.9 bits (76), Expect = 0.27
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 14/67 (20%)
Query: 246 LSVSLLNIQVGLIRK----------SWKH-PSA-D--SLLVEEIDVGEAKLRQVVSGLAK 291
+S L+N +VG RK S++H PS D S+++ E + K ++++ + +
Sbjct: 313 ISKYLMNREVGFGRKVLQILEDHGISYEHMPSGIDDLSIIIRERQLTPKKEDEILAEIKQ 372
Query: 292 YCNPDDL 298
NPD+L
Sbjct: 373 ELNPDEL 379
>gnl|CDD|198343 cd10310, GST_C_CysRS_N, Glutathione S-transferase C-terminal-like,
alpha helical domain of Cysteinyl-tRNA synthetase from
higher eukaryotes. Glutathione S-transferase (GST)
C-terminal domain family, Cysteinyl-tRNA synthetase
(CysRS) subfamily; This model characterizes the
GST_C-like domain found in the N-terminal region of
CysRS from higher eukaryotes. Aminoacyl-tRNA synthetases
(aaRSs) comprise a family of enzymes that catalyze the
coupling of amino acids with their matching tRNAs. This
involves the formation of an aminoacyl adenylate using
ATP, followed by the transfer of the activated amino
acid to the 3'-adenosine moiety of the tRNA. AaRSs may
also be involved in translational and transcriptional
regulation, as well as in tRNA processing. The
GST_C-like domain of CysRS from higher eukaryotes is
likely involved in protein-protein interactions, to
mediate the formation of the multi-aaRS complex that
acts as a molecular hub to coordinate protein synthesis.
CysRSs from prokaryotes and lower eukaryotes do not
appear to contain this GST_C-like domain.
Length = 73
Score = 30.2 bits (68), Expect = 0.30
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 9/56 (16%)
Query: 82 LNEELATKSVLLGNGLRTSEADVIVFSAVHSFVVGLANLDQGKMPHVMRWMDYIQS 137
LNE L+T+S L G G S+ADV VF L+ ++ HV+RW +I++
Sbjct: 26 LNEYLSTRSYLQGFGP--SQADVEVFRL-------LSRPPADRLVHVLRWYRHIEA 72
>gnl|CDD|218198 pfam04662, Luteo_PO, Luteovirus P0 protein. This family of
proteins may be involved in suppression of PTGS a plant
defence mechanism.
Length = 208
Score = 32.0 bits (73), Expect = 0.35
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 10/72 (13%)
Query: 243 DKELSVSLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVV----------SGLAKY 292
+ LSV L +I+ L W+ P ++ ++G V+ S LA+Y
Sbjct: 137 KRFLSVWLRDIERSLPESPWRSPVGPYTHLDLCNLGTLLRDLVLPEQLLHRGLYSRLARY 196
Query: 293 CNPDDLTNRRVA 304
N +R V
Sbjct: 197 YNRLYGEDRGVD 208
>gnl|CDD|198324 cd10291, GST_C_YfcG_like, C-terminal, alpha helical domain of
Escherichia coli YfcG Glutathione S-transferases and
related uncharacterized proteins. Glutathione
S-transferase (GST) C-terminal domain family, YfcG-like
subfamily; composed of the Escherichia coli YfcG and
related proteins. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain. YfcG is one of nine GST homologs in
Escherichia coli. It is expressed predominantly during
the late stationary phase where the predominant form of
GSH is glutathionylspermidine (GspSH), suggesting that
YfcG might interact with GspSH. It has very low or no
GSH transferase or peroxidase activity, but displays a
unique disulfide bond reductase activity that is
comparable to thioredoxins (TRXs) and glutaredoxins
(GRXs). However, unlike TRXs and GRXs, YfcG does not
contain a redox active cysteine residue and may use a
bound thiol disulfide couple such as 2GSH/GSSG for
activity. The crystal structure of YcfG reveals a bound
GSSG molecule in its active site. The actual
physiological substrates for YfcG are yet to be
identified.
Length = 110
Score = 31.1 bits (71), Expect = 0.35
Identities = 20/83 (24%), Positives = 40/83 (48%), Gaps = 14/83 (16%)
Query: 62 IEFA-ESFPADSKACFDVLIKLNEELATKSVLLGNGLRTSEADVIVFSAV--HSFV-VGL 117
I +A + + ++K + VL + LA L G+ S AD+ ++ V H + + L
Sbjct: 34 IPYAIKRYTNETKRLYGVL---DRRLAKSKYLAGD--EYSIADIAIWPWVARHEWQGIDL 88
Query: 118 ANLDQGKMPHVMRWMDYIQSKEA 140
A+ P++ RW + + ++ A
Sbjct: 89 ADF-----PNLKRWFERLAARPA 106
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 31.6 bits (72), Expect = 0.41
Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 5/80 (6%)
Query: 175 QSTNHAEKSEAPSNLKSGDAKKG----DTALQEKKKSVETEAVDKDKTKKAVGDKEAGQE 230
A+K + + KK +KKKS + + DKDK DK +
Sbjct: 55 AEYTEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEK-K 113
Query: 231 KKKSSETAAVDKDKELSVSL 250
+K +E D K S +L
Sbjct: 114 DEKEAEDKLEDLTKSYSETL 133
>gnl|CDD|225315 COG2517, COG2517, Predicted RNA-binding protein containing a
C-terminal EMAP domain [General function prediction
only].
Length = 219
Score = 31.8 bits (72), Expect = 0.53
Identities = 30/92 (32%), Positives = 41/92 (44%), Gaps = 8/92 (8%)
Query: 253 IQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQVVSGLAKYCNPDDLTNRRVALITNVKPG 312
I VG + KHP+AD LLV +++G VV+ D + VAL+ P
Sbjct: 122 IVVGEVMSVGKHPNADKLLVTVVNIGGRA-VTVVTNDLDVREGDRVA---VALL---PPR 174
Query: 313 KLRDVMSEGLVLCASNEDHTNVE-PLLPPEGA 343
V+SEG+ L A + D E P P E
Sbjct: 175 NFFGVVSEGMFLGAKDVDGEPGELPKGPLEAL 206
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 32.0 bits (72), Expect = 0.78
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 162 AKSAVDSNAKKTVQSTNHAEKSEAPSNLKSGDAKKGDTAL----QEKKKSVETEAVDKDK 217
A A + A+ AE+ + K +AKK A +EKKK+ E + ++
Sbjct: 1344 AAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEED 1403
Query: 218 TKKAVGDKEAGQEKKKSSE 236
KKA K+A KKK+ E
Sbjct: 1404 KKKADELKKAAAAKKKADE 1422
Score = 30.9 bits (69), Expect = 1.8
Identities = 25/81 (30%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 170 AKKTVQSTNHAEKSEAPSNL--KSGDAKKGDTA---LQEKKKSVETEAVDKDKTKKAVGD 224
AKK ++ AE+++ K+ +AKK D A +E KK+ E + ++ KKA
Sbjct: 1443 AKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEA 1502
Query: 225 KEAGQEKKKSSETAAVDKDKE 245
K+A + KKK+ E ++ K+
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKK 1523
Score = 30.1 bits (67), Expect = 2.6
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 170 AKKTVQSTNHAEKSEAPSNLKSGDAKKGDTA---LQEKKKSVETEAVDKDKTKKAVGDKE 226
A+K + EK +A K+ + KK D A +E KK+ E + ++ KKA K+
Sbjct: 1277 ARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKK 1336
Query: 227 AGQEKKKSSETAAVDKDK 244
+E KK++E A + +
Sbjct: 1337 KAEEAKKAAEAAKAEAEA 1354
Score = 29.7 bits (66), Expect = 4.1
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 163 KSAVDSNAKKTVQSTNHAE---KSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTK 219
K V+ KK + AE K+E + +K+ + K A ++KKK+ E + ++D+ K
Sbjct: 1632 KKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAK--KAEEDKKKAEEAKKAEEDEKK 1689
Query: 220 KAVGDKEAGQEKKKSSE 236
A K+ +E KK+ E
Sbjct: 1690 AAEALKKEAEEAKKAEE 1706
Score = 29.0 bits (64), Expect = 7.1
Identities = 19/75 (25%), Positives = 34/75 (45%)
Query: 162 AKSAVDSNAKKTVQSTNHAEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKA 221
AK D+ KK ++ AE ++A + + +A+ + + +K E D KK
Sbjct: 1327 AKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKK 1386
Query: 222 VGDKEAGQEKKKSSE 236
+K+ E KK +E
Sbjct: 1387 AEEKKKADEAKKKAE 1401
Score = 28.6 bits (63), Expect = 9.3
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 2/85 (2%)
Query: 163 KSAVDSNAKKTVQSTNHAE--KSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKK 220
D KK ++ A+ K +A K+ +A K + + E + + KK
Sbjct: 1314 AKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKK 1373
Query: 221 AVGDKEAGQEKKKSSETAAVDKDKE 245
K+A KKK+ E D+ K+
Sbjct: 1374 EEAKKKADAAKKKAEEKKKADEAKK 1398
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510). This
family consists of several hypothetical bacterial
proteins of around 200 residues in length. The function
of this family is unknown.
Length = 214
Score = 30.9 bits (70), Expect = 0.88
Identities = 11/70 (15%), Positives = 29/70 (41%)
Query: 180 AEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKAVGDKEAGQEKKKSSETAA 239
++++ A + ++E K+ + A +DK K +KE + ++++ E
Sbjct: 41 SDQAAADEQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDE 100
Query: 240 VDKDKELSVS 249
D+ +
Sbjct: 101 ESSDENEKET 110
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 31.2 bits (71), Expect = 1.2
Identities = 25/101 (24%), Positives = 40/101 (39%), Gaps = 8/101 (7%)
Query: 157 PPLHGAKSAVDSNAKKTVQSTNHAEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKD 216
+ + + +K+ +N K +P+ K +G A +KKK E + K
Sbjct: 1276 KRVSAVQYSPPPPSKRPDGESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKK 1335
Query: 217 KTKKAVGDKEAGQE--------KKKSSETAAVDKDKELSVS 249
K+K V A Q KKKS ++ D D E+ S
Sbjct: 1336 KSKTRVKQASASQSSRLLRRPRKKKSDSSSEDDDDSEVDDS 1376
>gnl|CDD|215395 PLN02742, PLN02742, Probable galacturonosyltransferase.
Length = 534
Score = 30.5 bits (69), Expect = 1.6
Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 10/48 (20%)
Query: 321 GLVLCASNEDHTNVEPLLPPEGA----KIGERISFSGIDGKPEEVLNP 364
GLVL P L E ++F+ EE+L+
Sbjct: 31 GLVLFVHKHSEIEPRPPLSERNYRKEEVNHEGLNFT------EEMLSA 72
>gnl|CDD|238301 cd00539, MCR_gamma, Methyl-coenzyme M reductase (MCR) gamma
subunit. MCR catalyzes the terminal step of methane
formation in the energy metabolism of all methanogenic
archaea, in which methyl-coenzyme M and coenzyme B are
converted to methane and the heterodisulfide of coenzyme
M and coenzyme B (CoM-S-S-CoB). MCR is a dimer of
trimers, each of which consists of one alpha, one beta,
and one gamma subunit, with two identical active sites
containing nickel porphinoid factor 430 (F430).
Length = 246
Score = 30.2 bits (68), Expect = 1.6
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 19/71 (26%)
Query: 300 NRRVALITNVKPGKLRDVMSEGLVLC----ASNEDHTNVEPLL---------------PP 340
NRR + + + KLR++ E LV A E++ +V P L P
Sbjct: 12 NRRKHMNPDYELEKLREISDEDLVKVLGHRAPGEEYKSVHPPLEEMDEPEDAVREMVEPT 71
Query: 341 EGAKIGERISF 351
EGAK G+R+ +
Sbjct: 72 EGAKAGDRVRY 82
>gnl|CDD|200087 TIGR01237, D1pyr5carbox2, delta-1-pyrroline-5-carboxylate
dehydrogenase, group 2, putative. This enzyme is the
second of two in the degradation of proline to
glutamate. This model represents one of several related
branches of delta-1-pyrroline-5-carboxylate
dehydrogenase. Members of this branch may be associated
with proline dehydrogenase (the other enzyme of the
pathway from proline to glutamate) but have not been
demonstrated experimentally. The branches are not as
closely related to each other as some distinct aldehyde
dehydrogenases are to some; separate models were built
to let each model describe a set of equivalogs [Energy
metabolism, Amino acids and amines].
Length = 511
Score = 30.2 bits (68), Expect = 2.4
Identities = 31/121 (25%), Positives = 51/121 (42%), Gaps = 17/121 (14%)
Query: 166 VDSNAKKTVQSTNHAEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKAVGDK 225
V++ K + S N +KSE + + + ALQ K+ E + + A+ K
Sbjct: 42 VETENK--IVSINPCDKSEVVGTVSKASQEHAEHALQAAAKAFEAWKKTDPEERAAILFK 99
Query: 226 EAGQEKKKSSETAAVDKDKELSVSLLNIQVGLIRKSWKHPSADSLLVEEIDVGEAKLRQV 285
A +++ E +A LL +VG K W AD+ + E ID E RQ+
Sbjct: 100 AAAIVRRRRHEFSA----------LLVKEVG---KPW--NEADAEVAEAIDFMEYYARQM 144
Query: 286 V 286
+
Sbjct: 145 I 145
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 30.2 bits (68), Expect = 2.5
Identities = 27/148 (18%), Positives = 60/148 (40%), Gaps = 16/148 (10%)
Query: 148 ISLEKP-GFEPPLHGAKSAVDSNAKKTVQSTNHAEKSEAP-SNLKSGDAKKGDTALQEKK 205
+S KP G P ++ V+S+ K+ Q+ E S S+L +K A +E +
Sbjct: 1 MSTSKPKGSAPRGFAPRTTVESSQKRIQQNNGDKEDSSTSTSSLSVSAVEKTSNAKEEIQ 60
Query: 206 KSVETEAVDKDKTKKAVGDKEAGQEKKKSSETAAVDKDKELSVSLLNIQVGLIRKSWKHP 265
+ + + +A + E Q + +++++ K++ +S + I
Sbjct: 61 VDFQHNSESAVEEVEAEDEIEVEQNQSDVLKSSSIVKEESISTDMDGI------------ 108
Query: 266 SADSLLVEEIDVG-EAKLRQVVSGLAKY 292
D L ++ + E ++ + LA+
Sbjct: 109 -DDDSLDRKLKLERENLRKREIEELAEE 135
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 29.5 bits (67), Expect = 3.3
Identities = 13/53 (24%), Positives = 26/53 (49%)
Query: 193 DAKKGDTALQEKKKSVETEAVDKDKTKKAVGDKEAGQEKKKSSETAAVDKDKE 245
KK +++ +K E E +K K A KE +E++K + ++++E
Sbjct: 408 ATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEE 460
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 29.0 bits (65), Expect = 3.6
Identities = 16/66 (24%), Positives = 30/66 (45%)
Query: 180 AEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKAVGDKEAGQEKKKSSETAA 239
A K E + + K KK ++E E + +AV +K+A + ++E AA
Sbjct: 105 AWKEEKEGKVNAKKDKLSKAKKAAKKAALEAEKKVNEARAEAVAEKKAAEAAAVAAEEAA 164
Query: 240 VDKDKE 245
+++E
Sbjct: 165 AAEEEE 170
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 29.6 bits (67), Expect = 3.8
Identities = 18/83 (21%), Positives = 26/83 (31%)
Query: 164 SAVDSNAKKTVQSTNHAEKSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKAVG 223
V V+ T+ A +S+ P AK KKK + K KK
Sbjct: 53 DQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNAL 112
Query: 224 DKEAGQEKKKSSETAAVDKDKEL 246
DK+ K + D +
Sbjct: 113 DKDDDLNYVKDIDVLNQADDDDD 135
>gnl|CDD|185727 cd08986, GH43_7, Glycosyl hydrolase family 43. This glycosyl
hydrolase family 43 (GH43) includes enzymes with
beta-1,4-xylosidase (xylan 1,4-beta-xylosidase; EC
3.2.1.37), beta-1,3-xylosidase (EC 3.2.1.-),
alpha-L-arabinofuranosidase (EC 3.2.1.55), arabinanase
(EC 3.2.1.99), xylanase (EC 3.2.1.8),
endo-alpha-L-arabinanase and galactan
1,3-beta-galactosidase (EC 3.2.1.145) activities. These
are inverting enzymes (i.e. they invert the
stereochemistry of the anomeric carbon atom of the
substrate) that have an aspartate as the catalytic
general base, a glutamate as the catalytic general acid
and another aspartate that is responsible for pKa
modulation and orienting the catalytic acid. Many of the
enzymes in this family display both
alpha-L-arabinofuranosidase and beta-D-xylosidase
activity using aryl-glycosides as substrates. A common
structural feature of GH43 enzymes is a 5-bladed
beta-propeller domain that contains the catalytic acid
and catalytic base. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 269
Score = 28.9 bits (65), Expect = 4.0
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 4/47 (8%)
Query: 339 PPEGAKIGERISFSGIDGKPE---EVLNPKKKQLEKITPNLFTDDKG 382
G I S GK E + + K I P+LF DD G
Sbjct: 97 MNNPGYGGSSILLS-TSGKIEGPYKHITGNKPLFPGIDPSLFEDDDG 142
>gnl|CDD|220841 pfam10670, DUF4198, Domain of unknown function (DUF4198). This
family was previously missannotated in Pfam as NikM.
Length = 219
Score = 28.5 bits (64), Expect = 5.1
Identities = 20/60 (33%), Positives = 23/60 (38%), Gaps = 9/60 (15%)
Query: 336 PLLPPEGAKIGERISFS-GIDGKP---EEV----LNPKKKQLEKITPNLFTDDKGVATFK 387
PL P GE +F DGKP EV + E T + TD GV TF
Sbjct: 144 PLTHPYDLVAGEPFTFQVLYDGKPAAGAEVEVEYGGTDYRD-EADTQEVKTDADGVFTFT 202
>gnl|CDD|202170 pfam02240, MCR_gamma, Methyl-coenzyme M reductase gamma subunit.
Methyl-coenzyme M reductase (MCR) is the enzyme
responsible for microbial formation of methane. It is a
hexamer composed of 2 alpha (pfam02249), 2 beta
(pfam02241), and 2 gamma (this family) subunits with two
identical nickel porphinoid active sites.
Length = 247
Score = 28.6 bits (64), Expect = 5.2
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 19/71 (26%)
Query: 300 NRRVALITNVKPGKLRDVMSEGLVLC----ASNEDHTNVEPLL---------------PP 340
NRR + + + KLR++ E +V A E++ +V P L P
Sbjct: 13 NRRKHMNPDYELEKLREISDEDVVKILGHRAPGEEYPSVHPPLEEMDEPEDPIREMVEPT 72
Query: 341 EGAKIGERISF 351
GAK G+R+ +
Sbjct: 73 PGAKAGDRVRY 83
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 28.8 bits (65), Expect = 5.2
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 182 KSEAPSNLKSGDAKKGDTALQEKKKSVETEAVDKDKTKKAVGD-KEAGQEKKKSSETAA 239
K++APS K+G K A + +KK E E K K KK D K G+ +K S +
Sbjct: 379 KTKAPSEKKTGKPSKKVLAKRAEKKEKEKE---KPKVKKRHRDTKNIGKRRKPSGTSEE 434
>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 411
Score = 28.6 bits (65), Expect = 5.7
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 89 KSVLLGNGLRTSEADVIV 106
KS LLG R +EADV+V
Sbjct: 150 KSTLLGMMARYTEADVVV 167
>gnl|CDD|129294 TIGR00190, thiC, thiamine biosynthesis protein ThiC. The thiC
ortholog is designated thiA in Bacillus subtilis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Thiamine].
Length = 423
Score = 28.6 bits (64), Expect = 6.9
Identities = 20/65 (30%), Positives = 27/65 (41%), Gaps = 9/65 (13%)
Query: 303 VALITNVKPGKLRDVMSEGLVLCASNEDHTNVEPLLPPEG------AKIGERISFSGIDG 356
VA NV P LR ++ G ++ SN + EP+ A IG S I+
Sbjct: 19 VAERENVDPEFLRREVASGRIVIPSNINREESEPMGIGRNLRTKVNANIGTSADTSDIE- 77
Query: 357 KPEEV 361
EEV
Sbjct: 78 --EEV 80
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G in
the GTP form binds to the ribosome, primarily through
the interaction of its EF-Tu-like domain with the 50S
subunit. The binding of EF-G to the ribosome in this
manner stimulates the GTPase activity of EF-G. On GTP
hydrolysis, EF-G undergoes a conformational change that
forces its arm deeper into the A site on the 30S
subunit. To accommodate this domain, the peptidyl-tRNA
in the A site moves to the P site, carrying the mRNA and
the deacylated tRNA with it. The ribosome may be
prepared for these rearrangements by the initial binding
of EF-G as well. The dissociation of EF-G leaves the
ribosome ready to accept the next aminoacyl-tRNA into
the A site. This group contains only bacterial members.
Length = 268
Score = 28.3 bits (64), Expect = 7.7
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 94 GNGLRTSEADVIVFSAVHSFVVGLAN----LDQGKMPHVM 129
+ LR +A +IV A VG LD K+P ++
Sbjct: 82 LSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAKLPRII 121
>gnl|CDD|226543 COG4057, McrG, Methyl coenzyme M reductase, gamma subunit [Coenzyme
metabolism].
Length = 257
Score = 27.9 bits (62), Expect = 9.5
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 19/71 (26%)
Query: 300 NRRVALITNVKPGKLRDVMSEGLVLC----ASNEDHTNVEPLL---------------PP 340
NRR + + KLR++ E LV A ED+ +V P L P
Sbjct: 17 NRRKHMNPEYELEKLREISDEDLVKILGHRAPGEDYPSVHPPLEEMDEPEDPIREMVEPI 76
Query: 341 EGAKIGERISF 351
+GAK G+R+ +
Sbjct: 77 QGAKAGDRVRY 87
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 28.1 bits (63), Expect = 9.8
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 89 KSVLLGNGLRTSEADVIV 106
KSVLLG R + ADVIV
Sbjct: 175 KSVLLGMMTRGTTADVIV 192
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
0.310 0.128 0.355
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,740,285
Number of extensions: 1880088
Number of successful extensions: 1556
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1436
Number of HSP's successfully gapped: 118
Length of query: 408
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 309
Effective length of database: 6,546,556
Effective search space: 2022885804
Effective search space used: 2022885804
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 60 (26.8 bits)