RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8462
(271 letters)
>gnl|CDD|149288 pfam08149, BING4CT, BING4CT (NUC141) domain. This C terminal
domain is found in the BING4 family of nucleolar WD40
repeat proteins.
Length = 80
Score = 94.2 bits (235), Expect = 6e-25
Identities = 32/42 (76%), Positives = 39/42 (92%)
Query: 29 GSGEPNYDALEANPFQTKKQRKEAEVKALLEKIQPEMISLDP 70
GSGEPN+D+LEANPF+TKKQR+E EV++LLEK+ PE ISLDP
Sbjct: 39 GSGEPNFDSLEANPFETKKQRREREVRSLLEKLPPETISLDP 80
>gnl|CDD|198101 smart01033, BING4CT, BING4CT (NUC141) domain. This C terminal
domain is found in the BING4 family of nucleolar WD40
repeat proteins.
Length = 80
Score = 92.7 bits (231), Expect = 2e-24
Identities = 30/42 (71%), Positives = 40/42 (95%)
Query: 29 GSGEPNYDALEANPFQTKKQRKEAEVKALLEKIQPEMISLDP 70
G+GEPN+D+LEANPF+T+KQR+E EV++LLEK+ PE+ISLDP
Sbjct: 39 GAGEPNFDSLEANPFETRKQRREREVRSLLEKLPPELISLDP 80
>gnl|CDD|235407 PRK05322, PRK05322, galactokinase; Provisional.
Length = 387
Score = 98.0 bits (245), Expect = 1e-23
Identities = 33/77 (42%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVKAHCVSN 244
DDYEV+ ELD + A GVLG RMTG GFGGCAIA+V D V V
Sbjct: 309 DDYEVTGLELDTLVEAAWKQEGVLGARMTGAGFGGCAIAIVKKDKVEAFKENVGKAYEEK 368
Query: 245 P--TPTFFVSDAYQGAT 259
+F+V++ GA
Sbjct: 369 IGYAASFYVAEIGDGAR 385
Score = 27.5 bits (62), Expect = 8.9
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 172 WANYVKGVVSIFNDDY 187
WANY KGV+ +
Sbjct: 91 WANYPKGVLKFLQEAG 106
>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 87.0 bits (216), Expect = 1e-19
Identities = 35/76 (46%), Positives = 42/76 (55%), Gaps = 2/76 (2%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVKAH--CV 242
DDYEV+C ELD + A + G G RMTG GFGGC IALV D V + V V
Sbjct: 311 DDYEVTCPELDTLVEIALAAGGAYGARMTGAGFGGCVIALVPNDDVEAVAEAVAEEYEKV 370
Query: 243 SNPTPTFFVSDAYQGA 258
+ F+V +A QGA
Sbjct: 371 TGLKAAFYVVEASQGA 386
Score = 34.6 bits (80), Expect = 0.044
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 5/68 (7%)
Query: 124 LPVVTVLLGSRNNSNQIHLHSDSARADKPTDISFDIPKVQKLTPGAPKWANYVKGVVSIF 183
+ T + ++ + ++ L+S A DI F + + K WANYVKGV+
Sbjct: 51 INYGTYVAVAKRDDGKVRLYS--ANFGNAGDIFFLLLDIAKEK--IDDWANYVKGVIKAL 106
Query: 184 ND-DYEVS 190
Y +
Sbjct: 107 QKRGYAFT 114
>gnl|CDD|232841 TIGR00131, gal_kin, galactokinase. Galactokinase is a member of
the GHMP kinases (Galactokinase, Homoserine kinase,
Mevalonate kinase, Phosphomevalonate kinase) and shares
with them an amino-terminal domain probably related to
ATP binding.The galactokinases found by This model are
divided into two sets. Prokaryotic forms are generally
shorter. The eukaryotic forms are longer because of
additional central regions and in some cases are known
to be bifunctional, with regulatory activities that are
independent of galactokinase activity [Energy
metabolism, Sugars].
Length = 386
Score = 66.4 bits (162), Expect = 1e-12
Identities = 29/76 (38%), Positives = 42/76 (55%), Gaps = 2/76 (2%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKV--KAHCV 242
DDYE +C E+D++ A + G G RMTG GFGGC + LV ++V+ + V K
Sbjct: 308 DDYECTCPEIDELVCSAALVNGSGGSRMTGAGFGGCTVHLVPNENVDKVRQAVADKYPKK 367
Query: 243 SNPTPTFFVSDAYQGA 258
+ TF+V + GA
Sbjct: 368 TGLELTFYVIVSKPGA 383
Score = 30.6 bits (69), Expect = 0.85
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 146 SARADKPTD-ISFDIPKVQKLTPGAPKWANYVKGVVSIFNDDY 187
A AD S D+P WANY KGV+ + + +
Sbjct: 65 LANADNKFAERSLDLPLDGSEVS---DWANYFKGVLHVAQERF 104
>gnl|CDD|235163 PRK03817, PRK03817, galactokinase; Provisional.
Length = 351
Score = 63.1 bits (154), Expect = 2e-11
Identities = 29/69 (42%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVKAHCVS- 243
D+YEVSC+ELD A L G G R+TG GFGG AIALV I ++
Sbjct: 273 DNYEVSCEELDFFVEFALEL-GAYGARLTGAGFGGSAIALVDKGKFESIGEELLEEYKKR 331
Query: 244 -NPTPTFFV 251
P +FV
Sbjct: 332 FGIDPKYFV 340
Score = 33.0 bits (76), Expect = 0.15
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 9/55 (16%)
Query: 137 SNQIHLHSDSARADKPTDISFDIPKVQKLTPGAPKWANYVKGV-VSIFNDDYEVS 190
S + +S++ +K +F++ K++KL WA+Y+KGV + YEV
Sbjct: 39 SEKFIFYSENFNEEK----TFELDKLEKLN----SWADYIKGVIWVLEKRGYEVG 85
>gnl|CDD|179937 PRK05101, PRK05101, galactokinase; Provisional.
Length = 382
Score = 63.0 bits (154), Expect = 2e-11
Identities = 28/77 (36%), Positives = 42/77 (54%), Gaps = 3/77 (3%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLG-CRMTGGGFGGCAIALVHTDHVNDIIAKVKAH--C 241
DD+E++ ++D + +++ G G RMTGGGFGGC +ALV + V + V
Sbjct: 303 DDFEITVPQIDTLVEIVKAVIGDQGGVRMTGGGFGGCIVALVPEELVEAVRQAVAEQYEA 362
Query: 242 VSNPTPTFFVSDAYQGA 258
+ TF+V A QGA
Sbjct: 363 KTGLKETFYVCKASQGA 379
Score = 28.0 bits (63), Expect = 6.2
Identities = 8/10 (80%), Positives = 10/10 (100%)
Query: 171 KWANYVKGVV 180
+WANYV+GVV
Sbjct: 91 QWANYVRGVV 100
>gnl|CDD|179063 PRK00555, PRK00555, galactokinase; Provisional.
Length = 363
Score = 62.2 bits (151), Expect = 4e-11
Identities = 33/76 (43%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 185 DDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVK--AHCV 242
DD+E++ + +D IA A G LG RMTGGGFGGC IALV D D+ V+ A
Sbjct: 285 DDFEITTERIDLIADSAVRA-GALGARMTGGGFGGCVIALVPADRAEDVADTVRRAAVTA 343
Query: 243 SNPTPTFFVSDAYQGA 258
P P VS Y
Sbjct: 344 GYPEPA--VSRTYAAP 357
>gnl|CDD|215285 PLN02521, PLN02521, galactokinase.
Length = 497
Score = 57.8 bits (140), Expect = 1e-09
Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 187 YEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVK 238
YE SC EL+++ + G LG R+TG G+GGCA+ALV V I +K
Sbjct: 410 YECSCPELEELVKVCRD-NGALGARLTGAGWGGCAVALVKEAIVPQFILALK 460
>gnl|CDD|219894 pfam08544, GHMP_kinases_C, GHMP kinases C terminal. This family
includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 86
Score = 46.0 bits (109), Expect = 7e-07
Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 187 YEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHT-DHVNDIIAKVKAHCV 242
+ ELD++ + L G LG +++G G G AL + ++ ++
Sbjct: 30 LGILSPELDELLEELREL-GALGAKLSGSGGGPTVFALFKDEEDAEEVAEALREAYP 85
>gnl|CDD|215466 PLN02865, PLN02865, galactokinase.
Length = 423
Score = 49.4 bits (118), Expect = 7e-07
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 178 GVVSIFNDDYEVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKV 237
G+ SI N YE C+ L + PGV G R +G GF GC +A V + + + V
Sbjct: 333 GLSSIEN--YECGCEPLIQLYEILLKAPGVYGARFSGAGFRGCCVAFVDAEMAEEAASFV 390
Query: 238 KA 239
+
Sbjct: 391 RD 392
>gnl|CDD|240347 PTZ00290, PTZ00290, galactokinase; Provisional.
Length = 468
Score = 48.7 bits (116), Expect = 1e-06
Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 188 EVSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVKAHCVS--NP 245
+++ ELD I GV G RM GGGFGGC I L+ + V+ ++A V+ +
Sbjct: 381 KITTPELDFIHELINEEKGVAGGRMMGGGFGGCIILLLKKNAVDRVVAHVREKFKARFGV 440
Query: 246 TPTFFVSDAYQGATHVSLEDW 266
+ A GA VSL++W
Sbjct: 441 ENDVYPVVAGDGAFVVSLKNW 461
>gnl|CDD|240351 PTZ00298, PTZ00298, mevalonate kinase; Provisional.
Length = 328
Score = 47.9 bits (114), Expect = 2e-06
Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 189 VSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAK-VKAHC 241
VSC+ELD I ++ G LG +M+G G GG +AL ++ D IAK V+A C
Sbjct: 258 VSCRELDSIVQTCRTY-GALGAKMSGTGRGGLVVALAASEDQRDAIAKAVRARC 310
>gnl|CDD|179677 PRK03926, PRK03926, mevalonate kinase; Provisional.
Length = 302
Score = 43.5 bits (103), Expect = 5e-05
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 5/62 (8%)
Query: 189 VSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALVHTDHVNDIIAKVKAHC----VSN 244
VS KEL ++ + A++ G LG ++TG G GGC +AL + +++ +K ++
Sbjct: 232 VSTKELSELIYAART-AGALGAKITGAGGGGCMVALAAPEKQSEVATAIKIAGGKPIITK 290
Query: 245 PT 246
T
Sbjct: 291 IT 292
>gnl|CDD|224493 COG1577, ERG12, Mevalonate kinase [Lipid metabolism].
Length = 307
Score = 43.5 bits (103), Expect = 6e-05
Identities = 20/37 (54%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 189 VSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIALV 225
VS ELD++ A+SL G LG ++TG G GGC IAL
Sbjct: 244 VSTPELDELVEAARSL-GALGAKLTGAGGGGCIIALA 279
>gnl|CDD|233017 TIGR00549, mevalon_kin, mevalonate kinase. This model represents
mevalonate kinase, the third step in the mevalonate
pathway of isopentanyl pyrophosphate (IPP) biosynthesis.
IPP is a common intermediate for a number of pathways
including cholesterol biosynthesis. This model covers
enzymes from eukaryotes, archaea and bacteria. The
related enzyme from the same pathway, phosphmevalonate
kinase, serves as an outgroup for this clade. Paracoccus
exhibits two genes within the
phosphomevalonate/mevalonate kinase family, one of which
falls between trusted and noise cutoffs of this model.
The degree of divergence is high, but if the trees
created from this model are correct, the proper names of
these genes have been swapped [Central intermediary
metabolism, Other].
Length = 274
Score = 40.7 bits (96), Expect = 4e-04
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 189 VSCKELDDIAHCAQSLPGVLGCRMTGGGFGGCAIAL 224
VS +LD + A+ G LG ++TG G GGC IAL
Sbjct: 240 VSHPKLDQLVEIARKA-GALGAKLTGAGGGGCMIAL 274
>gnl|CDD|215915 pfam00429, TLV_coat, ENV polyprotein (coat polyprotein).
Length = 560
Score = 33.6 bits (77), Expect = 0.11
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 6/59 (10%)
Query: 73 ITEVHVPTLKEKIEARNKLLVSNPGFALQFHFKPWWFNELQIFRSKYHKQCLPVVTVLL 131
I + L+E++ R +LL N + F F + P++ +LL
Sbjct: 491 IVRDSIAKLQERLPQRQRLLTDNQLWF------EGLFGLSPWFTTLLSTIMGPLLLLLL 543
>gnl|CDD|216788 pfam01923, Cob_adeno_trans, Cobalamin adenosyltransferase.
Cobalamin adenosyltransferase This family contains the
gene products of PduO and EutT which are both cobalamin
adenosyltransferases. PduO is a protein with
ATP:cob(I)alamin adenosyltransferase activity. The main
role of this protein is the conversion of inactive
cobalamins to AdoCbl for 1,2-propanediol
degradation.The EutT enzyme appears to be an adenosyl
transferase, converting CNB12 to AdoB12.
Length = 162
Score = 30.5 bits (70), Expect = 0.43
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 9/51 (17%)
Query: 51 EAEVKALLEKIQPEMISL---------DPQVITEVHVPTLKEKIEARNKLL 92
+ +++ LLE+IQ ++ L P ITE V L+E+I+ N L
Sbjct: 48 DEDLRELLERIQNDLFDLGADLATPGEKPLRITEEDVERLEEEIDEYNAEL 98
>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like). This
family includes outer membrane proteins such as OmpH
among others. Skp (OmpH) has been characterized as a
molecular chaperone that interacts with unfolded
proteins as they emerge in the periplasm from the Sec
translocation machinery.
Length = 140
Score = 30.2 bits (69), Expect = 0.48
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 39 EANPFQTKKQRKEAEVKALLEKIQPEMISLDPQVITE 75
E Q + ++ E E++ L EK+Q + +L +
Sbjct: 26 EFKKRQAELEKLEKELQKLKEKLQKDAATLSEAAREK 62
>gnl|CDD|219409 pfam07426, Dynactin_p22, Dynactin subunit p22. This family
contains p22, the smallest subunit of dynactin, a
complex that binds to cytoplasmic dynein and is a
required activator for cytoplasmic dynein-mediated
vesicular transport. Dynactin localises to the cleavage
furrow and to the midbodies of dividing cells,
suggesting that it may function in cytokinesis. Family
members are approximately 170 residues long.
Length = 172
Score = 30.2 bits (68), Expect = 0.81
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 50 KEAEVKALLEKIQPEMISLDPQVITEVHVP-TLK-EKIEARNKLLVSNPGFALQFH 103
K VK L +KI+ + LDPQ I + +P +K E I A + +VS Q H
Sbjct: 50 KRERVKILYKKIEDLLKYLDPQYIDRIALPDAMKLEFILAEEQFIVSQAALLEQVH 105
>gnl|CDD|184240 PRK13683, PRK13683, hypothetical protein; Provisional.
Length = 87
Score = 28.4 bits (64), Expect = 1.1
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 37 ALEANPFQTKKQRKEAE-VKALLEKIQPEMISLDPQVI 73
+L+ +P QRKEAE +AL ++I+ M S +P+++
Sbjct: 7 SLKYSPMPISVQRKEAEDAEALYQQIRQAMRSGNPRLL 44
>gnl|CDD|218739 pfam05767, Pox_A14, Poxvirus virion envelope protein A14. This
family consists of several Poxvirus virion envelope
protein A14 like sequences. A14 is a component of the
virion membrane and has been found to be an H1
phosphatase substrate in vivo and in vitro. A14 is
hyperphosphorylated on serine residues in the absence of
H1 expression.
Length = 92
Score = 28.1 bits (63), Expect = 1.6
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 114 IFRSKYHKQCLPVVTVLLGSRNNSNQIHL 142
+ S Y + C P V+ R NS+ I L
Sbjct: 63 VLFSMYGRYCAPSSKVVEYERYNSSDIEL 91
>gnl|CDD|233318 TIGR01219, Pmev_kin_ERG8, phosphomevalonate kinase, ERG8-type,
eukaryotic branch. This enzyme is part of the
mevalonate pathway, one of two alternative pathways for
the biosynthesis of IPP. In an example of nonorthologous
gene displacement, two different types of
phosphomevalonate kinase are found - the animal type and
this ERG8 type. This model represents plant and fungal
forms of the ERG8 type of phosphomevalonate kinase
[Central intermediary metabolism, Other].
Length = 454
Score = 29.5 bits (66), Expect = 2.2
Identities = 24/76 (31%), Positives = 30/76 (39%), Gaps = 11/76 (14%)
Query: 194 LDDIAHCAQSLPGVLGCRMTG-GGFGGCAIALVHTDHVNDIIAKVKAHCVSNPTPTFFVS 252
LD SL GVL + G GGF AI + V D K+ S+ V
Sbjct: 388 LDST----MSLEGVLLAGVPGAGGFD--AIFAITLGDV-DSGTKLTQAWSSHNVLALDVR 440
Query: 253 DAYQGATHVSLEDWPQ 268
+A G V LE P+
Sbjct: 441 EAPHG---VCLESDPR 453
>gnl|CDD|240842 cd12396, RRM1_Nop13p_fungi, RNA recognition motif 1 in yeast
nucleolar protein 13 (Nop13p) and similar proteins.
This subfamily corresponds to the RRM1 of Nop13p
encoded by YNL175c from Saccharomyces cerevisiae. It
shares high sequence similarity with nucleolar protein
12 (Nop12p). Both, Nop12p and Nop13p, are not essential
for growth. However, unlike Nop12p that is localized to
the nucleolus, Nop13p localizes primarily to the
nucleolus but is also present in the nucleoplasm to a
lesser extent. Nop13p contains two RNA recognition
motifs (RRMs), also termed RBDs (RNA binding domains)
or RNPs (ribonucleoprotein domains). .
Length = 85
Score = 27.5 bits (61), Expect = 2.6
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 67 SLDPQVITEVHVPTLKEKIEARNKLLVSNPGFA 99
+ + IT VH+P K K + + N GFA
Sbjct: 26 RITDEQITRVHMPDSKAKRKGVKQ----NKGFA 54
>gnl|CDD|215363 PLN02677, PLN02677, mevalonate kinase.
Length = 387
Score = 29.0 bits (65), Expect = 2.7
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 208 LGCRMTGGGFGGCAIALVHTDHVNDIIAKVKA 239
L ++TG G GGC + L+ T ++ KV A
Sbjct: 329 LVSKLTGAGGGGCVLTLLPTLLSGTVVDKVIA 360
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a
molecular chaperone that interacts with unfolded
proteins as they emerge in the periplasm from the Sec
translocation machinery.
Length = 157
Score = 28.4 bits (64), Expect = 2.8
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 39 EANPFQTKKQRKEAEVKALLEKIQPEMISLDPQVITE 75
E Q + Q+KE E++ +K+Q + +L +
Sbjct: 43 EFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKA 79
>gnl|CDD|213544 TIGR00636, PduO_Nterm, ATP:cob(I)alamin adenosyltransferase. This
model represents as ATP:cob(I)alamin adenosyltransferase
family corresponding to the N-terminal half of
Salmonella PduO, a 1,2-propanediol utilization protein
that probably is bifunctional. PduO represents one of at
least three families of ATP:corrinoid
adenosyltransferase: others are CobA (which partially
complements PduO) and EutT. It was not clear originally
whether ATP:cob(I)alamin adenosyltransferase activity
resides in the N-terminal region of PduO, modeled here,
but this has now become clear from the characterization
of MeaD from Methylobacterium extorquens [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 171
Score = 28.5 bits (64), Expect = 2.9
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 39 EANPF--QTKKQRKEAEVKALLEKIQPEMISL--------DPQVITEVHVPTLKEKIEAR 88
E N F K ++K LE+IQ ++ + D + ITE V L+E+I+
Sbjct: 33 ELNSFIGVALSLLKWEDLKEDLERIQNDLFDIGGDLATPGDTKKITEEDVKWLEERIDQY 92
Query: 89 NKLLVSNPGFAL 100
K L F L
Sbjct: 93 RKELPPLKLFVL 104
>gnl|CDD|213246 cd03279, ABC_sbcCD, ATP-binding cassette domain of sbcCD. SbcCD
and other Mre11/Rad50 (MR) complexes are implicated in
the metabolism of DNA ends. They cleave ends sealed by
hairpin structures and are thought to play a role in
removing protein bound to DNA termini.
Length = 213
Score = 28.0 bits (63), Expect = 4.3
Identities = 22/63 (34%), Positives = 28/63 (44%), Gaps = 21/63 (33%)
Query: 28 EGSGEPNYDALEANPFQTKKQRKEAEVKALLEKIQPE--MISLDPQVITEVHVPTLKEKI 85
EG G + +ALEA V LE I+ E M+ VI+ HV LKE+I
Sbjct: 159 EGFGTLDPEALEA-------------VATALELIRTENRMVG----VIS--HVEELKERI 199
Query: 86 EAR 88
R
Sbjct: 200 PQR 202
>gnl|CDD|132401 TIGR03358, VI_chp_5, type VI secretion protein, VC_A0107 family.
Work by Mougous, et al. (2006), describes IAHP-related
loci as a type VI secretion system (PMID:16763151). This
protein family is associated with type VI secretion
loci, although not treated explicitly by Mougous, et al
[Protein fate, Protein and peptide secretion and
trafficking, Cellular processes, Pathogenesis].
Length = 159
Score = 27.2 bits (61), Expect = 6.5
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 65 MISLDPQVITEVHVPTLKEKIEARNKL 91
M P + + VP LK+ +EAR L
Sbjct: 97 MDDFSPDAVAK-QVPELKKLLEAREAL 122
>gnl|CDD|130849 TIGR01789, lycopene_cycl, lycopene cyclase. This model represents
a family of bacterial lycopene cyclases catalyzing the
transformation of lycopene to carotene. These enzymes
are found in a limited spectrum of alpha and gamma
proteobacteria as well as Flavobacterium.
Length = 370
Score = 27.9 bits (62), Expect = 7.0
Identities = 20/65 (30%), Positives = 25/65 (38%), Gaps = 4/65 (6%)
Query: 210 CRMTGGGFGGCAIALVHTDHVND---IIAKVKAHCVSNPTPTFFVSDAYQGATHVSLEDW 266
C + GGG G IAL D + + N T +FF SD A H L D
Sbjct: 2 CIIVGGGLAGGLIALRLQRARPDFRIRVIEAGRTIGGNHTWSFFDSDLSD-AQHAWLADL 60
Query: 267 PQYHY 271
Q +
Sbjct: 61 VQTDW 65
>gnl|CDD|236407 PRK09198, PRK09198, putative nicotinate phosphoribosyltransferase;
Provisional.
Length = 463
Score = 27.6 bits (62), Expect = 7.9
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 10/57 (17%)
Query: 50 KEAEVKA---LLEKIQPEMI------SLDP-QVITEVHVPTLKEKIEARNKLLVSNP 96
+E E++A ++E+ P I S D ITE LK++I AR LV P
Sbjct: 238 REGELEAYRNMIEQFYPGGIVSIVSDSYDLWNAITEPWGGELKDEILARGGTLVIRP 294
>gnl|CDD|215833 pfam00274, Glycolytic, Fructose-bisphosphate aldolase class-I.
Length = 348
Score = 27.2 bits (61), Expect = 9.8
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 177 KGVVSIFNDDYEVSCKELDDIA-HCAQSLPGVLGCR 211
KG+V + D E + + LD +A CA+ G R
Sbjct: 96 KGLVPLAGTDGETTTQGLDGLAERCAEY--YKQGAR 129
>gnl|CDD|212675 cd10233, HSPA1-2_6-8-like_NBD, Nucleotide-binding domain of
HSPA1-A, -B, -L, HSPA-2, -6, -7, -8, and similar
proteins. This subfamily includes human HSPA1A (70-kDa
heat shock protein 1A, also known as HSP72; HSPA1;
HSP70I; HSPA1B; HSP70-1; HSP70-1A), HSPA1B (70-kDa heat
shock protein 1B, also known as HSPA1A; HSP70-2;
HSP70-1B), and HSPA1L (70-kDa heat shock protein 1-like,
also known as HSP70T; hum70t; HSP70-1L; HSP70-HOM). The
genes for these three HSPA1 proteins map in close
proximity on the major histocompatibility complex (MHC)
class III region on chromosome 6, 6p21.3. This subfamily
also includes human HSPA8 (heat shock 70kDa protein 8,
also known as LAP1; HSC54; HSC70; HSC71; HSP71; HSP73;
NIP71; HSPA10; the HSPA8 gene maps to 11q24.1), human
HSPA2 (70-kDa heat shock protein 2, also known as
HSP70-2; HSP70-3, the HSPA2 gene maps to 14q24.1), human
HSPA6 (also known as heat shock 70kDa protein 6
(HSP70B') gi 94717614, the HSPA6 gene maps to 1q23.3),
human HSPA7 (heat shock 70kDa protein 7 , also known as
HSP70B; the HSPA7 gene maps to 1q23.3) and Saccharmoyces
cerevisiae Stress-Seventy subfamily B/Ssb1p. This
subfamily belongs to the heat shock protein 70 (HSP70)
family of chaperones that assist in protein folding and
assembly and can direct incompetent "client" proteins
towards degradation. Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs).
Associations of polymorphisms within the MHC-III HSP70
gene locus with longevity, systemic lupus erythematosus,
Meniere's disease, noise-induced hearing loss,
high-altitude pulmonary edema, and coronary heart
disease, have been found. HSPA2 is involved in cancer
cell survival, is required for maturation of male
gametophytes, and is linked to male infertility. The
induction of HSPA6 is a biomarker of cellular stress.
HSPA8 participates in the folding and trafficking of
client proteins to different subcellular compartments,
and in the signal transduction and apoptosis process; it
has been shown to protect cardiomyocytes against
oxidative stress partly through an interaction with
alpha-enolase. S. cerevisiae Ssb1p, is part of the
ribosome-associated complex (RAC), it acts as a
chaperone for nascent polypeptides, and is important for
translation fidelity; Ssb1p is also a [PSI+]
prion-curing factor.
Length = 376
Score = 27.3 bits (61), Expect = 9.9
Identities = 23/63 (36%), Positives = 28/63 (44%), Gaps = 21/63 (33%)
Query: 109 FNEL--QIFRSKYHKQCL-PVVTVLLGSRNNSNQIH---LHSDSARADKPTDISFDIPKV 162
F EL +FR L PV VL ++ + +QIH L S R IPKV
Sbjct: 297 FEELCADLFRG-----TLEPVEKVLRDAKLDKSQIHDIVLVGGSTR----------IPKV 341
Query: 163 QKL 165
QKL
Sbjct: 342 QKL 344
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
0.317 0.134 0.413
Gapped
Lambda K H
0.267 0.0773 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,736,262
Number of extensions: 1279937
Number of successful extensions: 1177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1174
Number of HSP's successfully gapped: 43
Length of query: 271
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 176
Effective length of database: 6,723,972
Effective search space: 1183419072
Effective search space used: 1183419072
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: 58 (26.0 bits)