RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15305
(153 letters)
>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 = 167 bits (425), Expect = 9e-55
Identities = 68/100 (68%), Positives = 82/100 (82%), Gaps = 2/100 (2%)
Query: 42 VDIGRLDLRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVL 101
VD RLD+RVGKI++ KHPDADSLYVE+++LGE PRT+VSGLVKFVP+EQMQNR+VV+
Sbjct: 1 VDPSRLDIRVGKILKVRKHPDADSLYVEEIDLGEEEPRTIVSGLVKFVPLEQMQNRLVVV 60
Query: 102 LCNLKPAKMRGVTSEAMVMCASTPD--KVEILAPPSSDQC 139
LCNLKP KMRGV S+ MV+CAS D KVE+L PP +
Sbjct: 61 LCNLKPRKMRGVKSQGMVLCASNADHEKVELLEPPEGAKP 100
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 176 bits (449), Expect = 2e-52
Identities = 67/127 (52%), Positives = 87/127 (68%), Gaps = 2/127 (1%)
Query: 12 KDTSTKPEKPAKTKPAKAAAPKPSDKDEGPVDIGRLDLRVGKIIEASKHPDADSLYVEKV 71
K + K K E +D+ RLD+RVG I++A KHPDADSLYVE++
Sbjct: 608 KKKALSDGGKKKQGKKAGGGGKSKAAAEREIDVSRLDIRVGLIVKAEKHPDADSLYVEEI 667
Query: 72 ELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPAKMRGVTSEAMVMCASTPD--KVE 129
++GE APRTVVSGLVK++P+E+MQNR V +LCNLKPA MRG+ S+AMV+ AS D KVE
Sbjct: 668 DVGEGAPRTVVSGLVKYIPLEEMQNRKVCVLCNLKPAAMRGIKSQAMVLAASNSDHTKVE 727
Query: 130 ILAPPSS 136
++ PP S
Sbjct: 728 LVEPPES 734
>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 = 120 bits (304), Expect = 2e-36
Identities = 44/91 (48%), Positives = 56/91 (61%), Gaps = 4/91 (4%)
Query: 49 LRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPA 108
LRVGKI+EA HP+AD LYV KV++GE PR +VSG P E++ + VV+ NLKP
Sbjct: 1 LRVGKIVEAEPHPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPK 60
Query: 109 KMRGVTSEAMVMCASTP----DKVEILAPPS 135
K+RGV SE M++ A V IL P
Sbjct: 61 KLRGVESEGMLLSAEELGLEEGSVGILELPE 91
>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 = 117 bits (295), Expect = 3e-35
Identities = 44/88 (50%), Positives = 60/88 (68%), Gaps = 3/88 (3%)
Query: 49 LRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPA 108
LRVGK++EA KHP+AD L V KV++GE R +VSG V P E++ ++VV++ NLKPA
Sbjct: 1 LRVGKVLEAEKHPNADKLLVLKVDVGEEE-RQIVSGAVNVYPPEELVGKLVVVVANLKPA 59
Query: 109 KMRGVTSEAMVMCAST--PDKVEILAPP 134
K+RGV SE M++ A V +L PP
Sbjct: 60 KLRGVESEGMILSAEELDGGSVGLLEPP 87
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 115 bits (291), Expect = 9e-31
Identities = 42/131 (32%), Positives = 67/131 (51%), Gaps = 4/131 (3%)
Query: 10 VDKDTSTKPEKPAKTKPAKAAAPKPSDKDEGPV----DIGRLDLRVGKIIEASKHPDADS 65
+D + K A + K E P D +++LRV +++EA K +D
Sbjct: 510 IDVEEEIAYIKEQMEGSAPKEPEEKEKKPEKPEITIDDFDKVELRVAEVLEAEKVEKSDK 569
Query: 66 LYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPAKMRGVTSEAMVMCASTP 125
L +V+LGE PR +VSG+ KF P E++ + VV++ NLKPAK+ G S+ M++ A
Sbjct: 570 LLKLQVDLGEEEPRQIVSGIAKFYPPEELVGKKVVVVANLKPAKLMGEESQGMILAAEDD 629
Query: 126 DKVEILAPPSS 136
K+ +L
Sbjct: 630 GKLTLLTVDKE 640
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 110 bits (278), Expect = 5e-29
Identities = 42/125 (33%), Positives = 62/125 (49%), Gaps = 7/125 (5%)
Query: 17 KPEKPAKTKPAKAAAPKPSDKDEGPVDIG-----RLDLRVGKIIEASKHPDADSLYVEKV 71
++ A K A AAA P ++ I ++DLRV KI+EA K AD L +
Sbjct: 541 ASKEAAAAKAAAAAAAAPLAEEPIAETISFDDFAKVDLRVAKIVEAEKVEGADKLLKLTL 600
Query: 72 ELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPAKMRGVTSEAMVMCASTPDK-VEI 130
+LGE R V SG+ E++ ++VV++ NL P KM+ SE MV+ A + +
Sbjct: 601 DLGEE-TRQVFSGIKSAYDPEELVGKLVVMVANLAPRKMKFGVSEGMVLAAGPGGGDLFL 659
Query: 131 LAPPS 135
L P
Sbjct: 660 LEPDE 664
>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 = 94.5 bits (236), Expect = 5e-26
Identities = 39/92 (42%), Positives = 60/92 (65%), Gaps = 1/92 (1%)
Query: 43 DIGRLDLRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVLL 102
D ++DLRVGK++EA + +D L V+LGE R +VSG+ KF P E++ + VV++
Sbjct: 5 DFAKVDLRVGKVLEAERVEGSDKLLKLTVDLGE-EERQIVSGIAKFYPPEELVGKKVVVV 63
Query: 103 CNLKPAKMRGVTSEAMVMCASTPDKVEILAPP 134
NLKP K+RGV S+ M++ A K+++L P
Sbjct: 64 ANLKPRKLRGVESQGMILAAEDGGKLKLLTPD 95
>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 = 89.6 bits (223), Expect = 4e-24
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 1/96 (1%)
Query: 43 DIGRLDLRVGKIIEASKHPDA-DSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVL 101
D ++DLRVG I+E P+A Y KV+ GE + + + K+ E++ R VV
Sbjct: 5 DFEKVDLRVGTIVEVEDFPEARKPAYKLKVDFGEIGVKQSSAQITKYYKPEELIGRQVVA 64
Query: 102 LCNLKPAKMRGVTSEAMVMCASTPDKVEILAPPSSD 137
+ N P ++ GV SE +V+ A +L P +
Sbjct: 65 VVNFPPKQIAGVLSEVLVLGADDEGGEVVLLVPDRE 100
>gnl|CDD|223151 COG0073, ARC1, EMAP domain [General function prediction only].
Length = 123
Score = 88.9 bits (221), Expect = 1e-23
Identities = 42/104 (40%), Positives = 56/104 (53%), Gaps = 8/104 (7%)
Query: 41 PVDIGRLDLRVGKIIEASKHPDADSLYVEKVELGEP-APRTVVSGLVKFVPIEQMQNRMV 99
D ++DLRVGK++EA HP+AD L V KV+LG+ PR +V G F E++ V
Sbjct: 13 IDDFAKVDLRVGKVVEAEPHPNADKLLVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKV 72
Query: 100 VLLCN---LKPAKMRGVTSEAMVMCASTPD----KVEILAPPSS 136
+ N LKPAK+RGV SE M++ A V IL
Sbjct: 73 GAVLNGGKLKPAKLRGVESEGMLLSAEELGLSDENVGILTLDEG 116
>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 = 79.8 bits (197), Expect = 6e-20
Identities = 42/122 (34%), Positives = 67/122 (54%), Gaps = 4/122 (3%)
Query: 19 EKPAKTKPAKAAAPKPSDKDEGPVDI---GRLDLRVGKIIEASKHPDADSLYVEKVELGE 75
K AK K K K + + + I ++DLRVGKI++A + +D L K++LG+
Sbjct: 9 LKGAKKKEKKDEGEKALEPQKETITIDDFEKVDLRVGKILKAERVEKSDKLLKLKLDLGD 68
Query: 76 PAPRTVVSGLVKFVPIEQMQNRMVVLLCNLKPAKMRGVTSEAMVMCASTPDKVEILAPPS 135
R +VSG+ + E++ + V+++ NLKPAK+ GV SE M++ A KV L P
Sbjct: 69 -EKRQIVSGIAGYYTPEELVGKKVIVVANLKPAKLFGVKSEGMILAAEDDGKVLFLLSPD 127
Query: 136 SD 137
+
Sbjct: 128 QE 129
>gnl|CDD|182232 PRK10089, PRK10089, tRNA-binding protein; Provisional.
Length = 112
Score = 67.5 bits (166), Expect = 2e-15
Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 2/94 (2%)
Query: 43 DIGRLDLRVGKIIEASKHPDADSL-YVEKVELGEP-APRTVVSGLVKFVPIEQMQNRMVV 100
D ++D+RVG I+EA P+A Y ++ GE + + + E++ + VV
Sbjct: 8 DFEKVDIRVGTIVEAEPFPEARKPAYKLWIDFGEEIGVKQSSAQITPHYTPEELIGKQVV 67
Query: 101 LLCNLKPAKMRGVTSEAMVMCASTPDKVEILAPP 134
+ N P ++ G SE +V+ D +L P
Sbjct: 68 AVVNFPPKQIAGFMSEVLVLGFEDEDGEVVLLTP 101
>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 = 52.9 bits (128), Expect = 6e-10
Identities = 28/83 (33%), Positives = 40/83 (48%), Gaps = 15/83 (18%)
Query: 49 LRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVL------- 101
+ VGK++E HP+AD L V KV++GE P +V G VV+
Sbjct: 1 VVVGKVLEVEPHPNADKLNVCKVDIGENKPLQIVCGAPNVR-----AGDKVVVALPGAVL 55
Query: 102 --LCNLKPAKMRGVTSEAMVMCA 122
+K K+RGV SE M +C+
Sbjct: 56 PGGLKIKKRKLRGVESEGM-LCS 77
>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 = 55.0 bits (133), Expect = 1e-09
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 15/82 (18%)
Query: 51 VGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLV-----KFVPI----EQMQNRMVVL 101
VGK++E HP+AD L V KV++GE +V G K V + ++ N + +
Sbjct: 48 VGKVLEVEPHPNADKLKVCKVDIGEKEMLQIVCGAPNVEAGKKVAVALPGAKLPNGLKI- 106
Query: 102 LCNLKPAKMRGVTSEAMVMCAS 123
K +K+RGV SE M+ C+
Sbjct: 107 ----KKSKLRGVESEGML-CSE 123
>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 = 51.3 bits (123), Expect = 3e-09
Identities = 28/94 (29%), Positives = 45/94 (47%), Gaps = 3/94 (3%)
Query: 43 DIGRLDLRVGKIIEASKHPDA-DSLYVEKVELGEP-APRTVVSGLVKFVPIEQMQNRMVV 100
D +LDLRVG+I+ A P+A Y V+ G + + + K E + R+VV
Sbjct: 3 DFEKLDLRVGRIVRAEPFPEARKPAYKLWVDFGTEIGVKQSSAQITKLYKPEDLIGRLVV 62
Query: 101 LLCNLKPAKMRGVTSEAMVMCAST-PDKVEILAP 133
+ N P ++ G SE +V+ +V +L P
Sbjct: 63 AVVNFPPKQIAGFLSEVLVLGVIDEQGRVVLLQP 96
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 50.2 bits (121), Expect = 6e-08
Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 20/84 (23%)
Query: 51 VGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGL--VKFVPIEQMQNRMVVL------L 102
VGK++E KHP+AD L V +V++GE P +V G V+ V + L
Sbjct: 47 VGKVLECEKHPNADKLRVCQVDVGEE-PLQIVCGAPNVR-------AGDKVPVALPGAVL 98
Query: 103 CN---LKPAKMRGVTSEAMVMCAS 123
+K AK+RGV SE M +C++
Sbjct: 99 PGGFKIKKAKLRGVESEGM-LCSA 121
>gnl|CDD|225315 COG2517, COG2517, Predicted RNA-binding protein containing a
C-terminal EMAP domain [General function prediction
only].
Length = 219
Score = 39.1 bits (91), Expect = 3e-04
Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 7/72 (9%)
Query: 47 LDLRVGKIIEASKHPDADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVVLLCNLK 106
+D+ VG+++ KHP+AD L V V +G A TVV+ + + +R+ V L L
Sbjct: 120 VDIVVGEVMSVGKHPNADKLLVTVVNIGGRA-VTVVTNDLDV----REGDRVAVAL--LP 172
Query: 107 PAKMRGVTSEAM 118
P GV SE M
Sbjct: 173 PRNFFGVVSEGM 184
>gnl|CDD|145910 pfam03012, PP_M1, Phosphoprotein. This family includes the M1
phosphoprotein non-structural RNA polymerase alpha
subunit, which is thought to be a component of the
active polymerase, and may be involved in template
binding.
Length = 298
Score = 28.5 bits (64), Expect = 1.2
Identities = 18/68 (26%), Positives = 27/68 (39%), Gaps = 2/68 (2%)
Query: 2 STPQSKSPVDKDTSTKPEKPAKTKPAKAAAPKPSDKDEGPVDIGRLDLRVGKIIEASKHP 61
P KS DK T T PEK ++++AP ++ + + +E S
Sbjct: 134 PKPPGKSTEDKSTQTDPEKS--KPASQSSAPVKKEEQSSSEKVDSQEASGPPALEWSATN 191
Query: 62 DADSLYVE 69
D D VE
Sbjct: 192 DEDDASVE 199
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 28.6 bits (64), Expect = 1.5
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 12 KDTSTKPEKPAKTKPAKAA--APKPSDKDEGPVDI 44
K K EKPAK + K A A PS+++ P I
Sbjct: 189 KPVKKKKEKPAKVEEKKVAVAAAPPSEEELNPYSI 223
>gnl|CDD|215584 PLN03113, PLN03113, DNA ligase 1; Provisional.
Length = 744
Score = 27.6 bits (61), Expect = 2.9
Identities = 26/108 (24%), Positives = 40/108 (37%), Gaps = 5/108 (4%)
Query: 1 SSTPQSKSPVDKDTSTKPEKPAKTKPAKAAAPKPSDKDEGPVDIGRLDLRVGKIIEASKH 60
S K+ + + KP + + A K K + + D KI K
Sbjct: 52 SEGTLPKTEDTIEPKSDSAKPRSSTSSIAEDSKTGTKKAQTLSKPKKDEMKSKIGLLKKK 111
Query: 61 P-DADSLYVEKVELGEPAPRTVVSGLVKFVPIEQMQNRMVV--LLCNL 105
P D D V E GE P V+ + F I R+V+ ++CN+
Sbjct: 112 PNDFDPEKVAYWEKGERVPFLFVA--LAFDLISNETGRIVITDIVCNM 157
>gnl|CDD|182725 PRK10781, rcsF, outer membrane lipoprotein; Reviewed.
Length = 133
Score = 26.2 bits (58), Expect = 4.9
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 5 QSKSPVDKDTSTKPEKPAKTKPAKAAAPKPS 35
S+SPV+ ST P P K +PAK AP+ +
Sbjct: 19 LSRSPVEPVQSTAP--PPKAEPAKPKAPRAA 47
>gnl|CDD|226676 COG4223, COG4223, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 422
Score = 26.9 bits (59), Expect = 5.1
Identities = 18/68 (26%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 22 AKTKPAKA-AAPKPSDKDEGPVDIGRLDLRVGKIIEASKHPDADSLYVEKV----ELGEP 76
+T PA A A PV + DL + +A A++ VE P
Sbjct: 24 EQTDPAAAEEAADADQPKAEPVHADQTDLEADGVGQAGTEESAEAKAVEPEMPYPGSDAP 83
Query: 77 APRTVVSG 84
A RT S
Sbjct: 84 ADRTAASD 91
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 26.8 bits (59), Expect = 5.5
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 3 TPQSKSPVDKDTSTKPEKPAKTKPAKAAAPKPSD 36
P +K+ + + EKP K KP + PKP+
Sbjct: 38 APATKAAAPAAAAPRAEKPKKDKPRRERKPKPAS 71
>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional.
Length = 295
Score = 26.8 bits (59), Expect = 5.5
Identities = 11/39 (28%), Positives = 15/39 (38%)
Query: 1 SSTPQSKSPVDKDTSTKPEKPAKTKPAKAAAPKPSDKDE 39
T + K P K +T E K AK + K + K
Sbjct: 10 KKTTEEKKPAAKKATTSKETAKTKKTAKTTSTKAAKKAA 48
>gnl|CDD|237081 PRK12372, PRK12372, ribonuclease III; Reviewed.
Length = 413
Score = 26.8 bits (59), Expect = 5.9
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 17 KPEKPAKTKPAKAAAPKPSDKDEGPV 42
K E+ AK A AA KP+D+ +
Sbjct: 313 KGERAAKPAAADKAADKPADRPDAAE 338
>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 26.7 bits (58), Expect = 5.9
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 9/51 (17%)
Query: 1 SSTPQSKSP-VDKDTSTKPEKPA--------KTKPAKAAAPKPSDKDEGPV 42
+STP + + V K+T+T+ PA +T A APK ++ E PV
Sbjct: 144 TSTPVAPTQEVKKETTTQQAAPAAETKTEVKQTTQATTPAPKVAETKETPV 194
>gnl|CDD|179898 PRK04949, PRK04949, putative sulfate transport protein CysZ;
Validated.
Length = 251
Score = 26.0 bits (58), Expect = 8.1
Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 69 EKVEL---GEPAPRTVVSGLVKFVP 90
EKVE GE P T ++GLVK VP
Sbjct: 107 EKVEARLTGETLPDTGIAGLVKDVP 131
>gnl|CDD|223504 COG0427, ACH1, Acetyl-CoA hydrolase [Energy production and
conversion].
Length = 501
Score = 26.2 bits (58), Expect = 8.6
Identities = 16/52 (30%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 48 DLRVGKIIEASKHPDADSLYVEKVELGEPAP--------RTVVSGLVKFVPI 91
DLRV AS D D E E+ AP + + G V FV
Sbjct: 62 DLRVLLFTGASIGADEDLKLAEAGEVIRRAPYQVYSPVRKAINEGGVDFVDQ 113
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
0.312 0.129 0.366
Gapped
Lambda K H
0.267 0.0666 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,388,588
Number of extensions: 645726
Number of successful extensions: 673
Number of sequences better than 10.0: 1
Number of HSP's gapped: 647
Number of HSP's successfully gapped: 67
Length of query: 153
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 64
Effective length of database: 6,990,096
Effective search space: 447366144
Effective search space used: 447366144
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 (21.8 bits)
S2: 55 (25.1 bits)