RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14548
(482 letters)
>gnl|CDD|220754 pfam10436, BCDHK_Adom3, Mitochondrial branched-chain alpha-ketoacid
dehydrogenase kinase. Catabolism and synthesis of
leucine, isoleucine and valine are finely balanced,
allowing the body to make the most of dietary input but
removing excesses to prevent toxic build-up of their
corresponding keto-acids. This is the butyryl-CoA
dehydrogenase, subunit A domain 3, a largely
alpha-helical bundle of the enzyme BCDHK. This enzyme is
the regulator of the dehydrogenase complex that breaks
branched-chain amino-acids down, by phosphorylating and
thereby inactivating it when synthesis is required. The
domain is associated with family HATPase_c pfam02518
which is towards the C-terminal.
Length = 163
Score = 205 bits (524), Expect = 2e-64
Identities = 77/169 (45%), Positives = 104/169 (61%), Gaps = 9/169 (5%)
Query: 24 SPLSIKQFIDFGLSASEE---KSFMFLRKELPVRLANIMKEIHLLPDNLLRMPSVGLVNE 80
+PLS++Q + FG + +E+ KS FLR+ELPVRLA+ ++E+ LLP L+ PS+ V E
Sbjct: 1 TPLSLRQLLQFGRNPTEKTLLKSAQFLREELPVRLAHRIRELQLLPYGLVANPSILQVYE 60
Query: 81 WYAMSFDEILEFEKADSNSTDTLDKFCKALVKIRNRHSDVVQTMAQGVMELKDSHDVDHQ 140
WY SF+E+ F + + +KFC L I +RH++VV T+AQGV+ELKD D
Sbjct: 61 WYLQSFEELRSFP--PPKTLEDNEKFCDLLRDILDRHNNVVPTLAQGVLELKDLLDP--V 116
Query: 141 TENSIQYFLDRFYMSRISIRMLINQHTLLFGDELTRGDSSLRHIGCIDP 189
E+ IQYFLDRF SRI IRML QH L E T ++G ID
Sbjct: 117 PEDEIQYFLDRFLRSRIGIRMLAEQHLALT--ENTHSPKHPDYVGIIDT 163
>gnl|CDD|214643 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 80.8 bits (200), Expect = 1e-18
Identities = 31/121 (25%), Positives = 48/121 (39%), Gaps = 14/121 (11%)
Query: 238 PSHLYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVTD 297
P L +L L N+++ T E I V++ R + + + + D G GIP +
Sbjct: 3 PDRLRQVLSNLLDNAIKYTPEG-------GRITVTLERDGDHVEITVEDNGPGIPPEDLE 55
Query: 298 MLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYL 357
+F + T + K G G GL I + G+I + S G GT I L
Sbjct: 56 KIFEPFFRTDKRSRKI-------GGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITL 108
Query: 358 K 358
Sbjct: 109 P 109
Score = 37.2 bits (87), Expect = 0.002
Identities = 14/46 (30%), Positives = 20/46 (43%)
Query: 415 SDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYLK 460
+D + + G G GL I + G+I + S G GT I L
Sbjct: 64 TDKRSRKIGGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITLP 109
>gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and
HSP90-like ATPase. This family represents the
structurally related ATPase domains of histidine kinase,
DNA gyrase B and HSP90.
Length = 111
Score = 80.4 bits (199), Expect = 2e-18
Identities = 29/122 (23%), Positives = 41/122 (33%), Gaps = 14/122 (11%)
Query: 237 VPSHLYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVT 296
L +L L N+++ IEV++ R + + + D G GIP
Sbjct: 2 DEDRLRQVLSNLLDNAIKHAPAG-------GEIEVTLERDGGRLRITVEDNGIGIPPEDL 54
Query: 297 DMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIY 356
+F + T K G G GL I R G I + S G GT
Sbjct: 55 PKIFEPFFRTDSSSRKV-------GGTGLGLSIVRKLVELHGGTITVESEPGGGTTFTFT 107
Query: 357 LK 358
L
Sbjct: 108 LP 109
Score = 36.9 bits (86), Expect = 0.004
Identities = 14/46 (30%), Positives = 19/46 (41%)
Query: 415 SDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYLK 460
+D+ + + G G GL I R G I + S G GT L
Sbjct: 64 TDSSSRKVGGTGLGLSIVRKLVELHGGTITVESEPGGGTTFTFTLP 109
>gnl|CDD|238030 cd00075, HATPase_c, Histidine kinase-like ATPases; This family
includes several ATP-binding proteins for example:
histidine kinase, DNA gyrase B, topoisomerases, heat
shock protein HSP90, phytochrome-like ATPases and DNA
mismatch repair proteins.
Length = 103
Score = 72.7 bits (179), Expect = 9e-16
Identities = 29/117 (24%), Positives = 46/117 (39%), Gaps = 14/117 (11%)
Query: 241 LYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVTDMLF 300
L +L L N+++ T E I +SV R + + +++ D G GIP + +F
Sbjct: 1 LQQVLLNLLSNAIKHTPEGGGR------ITISVERDGDHLEIRVEDNGPGIPEEDLERIF 54
Query: 301 HYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYL 357
+ + + G G GL I + G I + S G GT I L
Sbjct: 55 --------ERFSDGSRSRKGGGTGLGLSIVKKLVELHGGRIEVESEPGGGTTFTITL 103
Score = 37.6 bits (88), Expect = 0.002
Identities = 13/44 (29%), Positives = 17/44 (38%)
Query: 416 DAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYL 459
+ + G G GL I + G I + S G GT I L
Sbjct: 60 GSRSRKGGGTGLGLSIVKKLVELHGGRIEVESEPGGGTTFTITL 103
>gnl|CDD|223715 COG0642, BaeS, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 336
Score = 61.3 bits (148), Expect = 3e-10
Identities = 56/337 (16%), Positives = 107/337 (31%), Gaps = 52/337 (15%)
Query: 44 FMFLRKELPVRLANIMKEIHLLPDNLLRMPSVGLVNEWYAMSFDEILEFEKADSNSTDTL 103
+ L L L + + LL LLR + + L S
Sbjct: 38 LLLLLLTLLAALLVALLLLLLLLRRLLRPLLLLADAANALAAGLTRLVLASLGSELASLA 97
Query: 104 DKFCKALVKIRNRHSDVVQTMAQGVMELKDSHDV--------------DHQTENSIQYFL 149
+ L ++ + + SH++ + + L
Sbjct: 98 HALNELLERLERLLRRAKREFLANI-----SHELRTPLTAIRGLLELLLEGLLDPQRELL 152
Query: 150 DRFYMSRISIRMLINQHTLLFGDELTRGDSSLRHIGCIDPQCDLIGVVKDAYENARFLCE 209
+ + L+N LL +L+R ++ + ++ DL ++++ L +
Sbjct: 153 EIIEEEAERLLRLVND--LL---DLSRLEAGTKLKLLLEL-VDLAELLEEVVRLLAPLAQ 206
Query: 210 QYYLSSPELKVTEHNEYEKGEPVRIIYVPSHLYHMLFELFKNSMRATVEHHTDTDVLPPI 269
+ +++ + E ++ P L +L L N+++ T I
Sbjct: 207 E-----KGIEL----AVDLPELPYVLGDPERLRQVLVNLLSNAIKYTPG--------GEI 249
Query: 270 EVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPI 329
+SV + E + + + D G GIP + +F + T S G G GL I
Sbjct: 250 TISVRQDDEQVTISVEDTGPGIPEEELERIFEPFFRTDKSRS----------GTGLGLAI 299
Query: 330 SRLYARYFHGDIMLLSCDGLGTDAIIYLKALSNEANE 366
+ G I + S G GT I L A+
Sbjct: 300 VKRIVELHGGTISVESEPGKGTTFTIRLPLAPAAADA 336
Score = 32.0 bits (72), Expect = 0.73
Identities = 14/45 (31%), Positives = 17/45 (37%)
Query: 424 GYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYLKALSNEANE 468
G G GL I + G I + S G GT I L A+
Sbjct: 292 GTGLGLAIVKRIVELHGGTISVESEPGKGTTFTIRLPLAPAAADA 336
>gnl|CDD|236901 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 39.6 bits (93), Expect = 0.003
Identities = 22/91 (24%), Positives = 37/91 (40%), Gaps = 13/91 (14%)
Query: 269 IEVSVVRGKED-ICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGL 327
I + + + + V + D G GI + +F ++T + G G GL
Sbjct: 522 IRIRTWQYSDGQVAVSIEDNGCGIDPELLKKIFDPFFTTKAK------------GTGLGL 569
Query: 328 PISRLYARYFHGDIMLLSCDGLGTDAIIYLK 358
+S+ GDI + S G+GT +YL
Sbjct: 570 ALSQRIINAHGGDIEVESEPGVGTTFTLYLP 600
>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 38.0 bits (89), Expect = 0.011
Identities = 34/131 (25%), Positives = 58/131 (44%), Gaps = 16/131 (12%)
Query: 231 PVRIIYVPSHLYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVR-GKEDICVKMSDKGG 289
P ++I + L +L+ L N+++ T + + V V + + ++ D G
Sbjct: 389 PHKVITDGTRLRQILWNLISNAVKFTQQGG--------VTVRVRYEEGDMLTFEVEDSGI 440
Query: 290 GIPRSVTDMLFHYMYSTAPQPSKSDAH-TVPLAGYGYGLPISRLYARYFHGDIMLLSCDG 348
GIP D +F MY D+H P G G GL +S+ A+ GDI + S +G
Sbjct: 441 GIPEDELDKIFA-MYYQVK-----DSHGGKPATGTGIGLAVSKRLAQAMGGDITVTSEEG 494
Query: 349 LGTDAIIYLKA 359
G+ + + A
Sbjct: 495 KGSCFTLTIHA 505
>gnl|CDD|227335 COG5002, VicK, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 459
Score = 37.8 bits (88), Expect = 0.012
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 269 IEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLP 328
I VSV + + + + +SD+G GIP+ + +F Y A + + G G GL
Sbjct: 364 ITVSVKQRETWVEISISDQGLGIPKEDLEKIFDRFYRV------DKARSRKMGGTGLGLA 417
Query: 329 ISRLYARYFHGDIMLLSCDGLGT 351
I++ + G I S +G GT
Sbjct: 418 IAKEIVQAHGGRIWAESEEGKGT 440
>gnl|CDD|236674 PRK10364, PRK10364, sensor protein ZraS; Provisional.
Length = 457
Score = 36.7 bits (85), Expect = 0.022
Identities = 25/120 (20%), Positives = 46/120 (38%), Gaps = 19/120 (15%)
Query: 238 PSHLYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVTD 297
P L +L L+ N+++A +H I V+ + + ++D G GI +
Sbjct: 346 PDRLTQVLLNLYLNAIQAIGQHGV-------ISVTASESGAGVKISVTDSGKGIAADQLE 398
Query: 298 MLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFHGDIMLLSCDGLGTDAIIYL 357
+F ++T + G G GL + G I + S +G G ++L
Sbjct: 399 AIFTPYFTTKAE------------GTGLGLAVVHNIVEQHGGTIQVASQEGKGATFTLWL 446
>gnl|CDD|226654 COG4191, COG4191, Signal transduction histidine kinase regulating
C4-dicarboxylate transport system [Signal transduction
mechanisms].
Length = 603
Score = 36.5 bits (85), Expect = 0.032
Identities = 21/93 (22%), Positives = 33/93 (35%), Gaps = 10/93 (10%)
Query: 267 PPIEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYG 326
+ + R + + + D G GI LF ++T K G G G
Sbjct: 519 RRLSIRAQREGGQVVLTVRDNGPGIAPEALPHLFEPFFTT-----KPVGK-----GLGLG 568
Query: 327 LPISRLYARYFHGDIMLLSCDGLGTDAIIYLKA 359
L IS+ AR G + + + G I L+
Sbjct: 569 LAISQNIARDLGGSLEVANHPEGGASFTIELRR 601
>gnl|CDD|163497 TIGR03785, marine_sort_HK, proteobacterial dedicated sortase system
histidine kinase. This histidine kinase protein is
paired with an adjacent response regulator (TIGR03787)
gene. It co-occurs with a variant sortase enzyme
(TIGR03784), usually in the same gene neighborhood, in
proteobacterial species most of which are marine, and
with an LPXTG motif-containing sortase target conserved
protein (TIGR03788). Sortases and LPXTG proteins are far
more common in Gram-positive bacteria, where sortase
systems mediate attachment to the cell wall or
cross-linking of pilin structures. We give this
predicted sensor histidine kinase the gene symbol psdS,
for Proteobacterial Dedicated Sortase system Sensor
histidine kinase.
Length = 703
Score = 35.9 bits (83), Expect = 0.049
Identities = 28/105 (26%), Positives = 44/105 (41%), Gaps = 13/105 (12%)
Query: 237 VPSHLYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVT 296
P + ML +L N+ + E IEV + + K + +S++G +P +
Sbjct: 594 SPELIAQMLDKLVDNAREFSPED-------GLIEVGLSQNKSHALLTVSNEGPPLPEDMG 646
Query: 297 DMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFHGDI 341
+ LF M S Q ++ H G GL I RL A + G I
Sbjct: 647 EQLFDSMVSVRDQGAQDQPH------LGLGLYIVRLIADFHQGRI 685
>gnl|CDD|225115 COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal
transduction mechanisms].
Length = 890
Score = 33.8 bits (78), Expect = 0.20
Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 15/87 (17%)
Query: 245 LFELFKNSMRATVEHHTDTDVLPPIEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMY 304
L L +N+++ I ++ +E++ + D+G GIP + +F +
Sbjct: 780 LINLLENALKYAPPGSE-------IRINAGVERENVVFSVIDEGPGIPEGELERIFD-KF 831
Query: 305 STAPQPSKSDAHTVPLAGYGYGLPISR 331
+ S + G G GL I R
Sbjct: 832 YRGNKESATR-------GVGLGLAICR 851
>gnl|CDD|233391 TIGR01386, cztS_silS_copS, heavy metal sensor kinase. Members of
this family contain a sensor histidine kinase domain
(pfam00512) and a domain found in bacterial signal
proteins (pfam00672). This group is separated
phylogenetically from related proteins with similar
architecture and contains a number of proteins
associated with heavy metal resistance efflux systems
for copper, silver, cadmium, and/or zinc.
Length = 457
Score = 33.5 bits (77), Expect = 0.26
Identities = 25/80 (31%), Positives = 31/80 (38%), Gaps = 6/80 (7%)
Query: 269 IEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLP 328
I V + R +++ V +S+ G GIP LF Y P S S T G GL
Sbjct: 375 ITVRIERRSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGT------GLGLA 428
Query: 329 ISRLYARYFHGDIMLLSCDG 348
I R G S DG
Sbjct: 429 IVRSIMEAHGGRASAESPDG 448
>gnl|CDD|233250 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model
describes DNA topoisomerase VI, an archaeal type II DNA
topoisomerase (DNA gyrase) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 488
Score = 32.9 bits (75), Expect = 0.45
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 241 LYHMLFELFKNSMRATVEHHTDTDVLPPIEVSVVR-GKEDICVKMSDKGGGIPRSVTDML 299
L ++ EL NS+ A E +LP I+V + + GK+ V + D G GIP +
Sbjct: 29 LTTVIHELVTNSLDACEE----AGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEYIPKV 84
Query: 300 FHYM 303
F M
Sbjct: 85 FGKM 88
>gnl|CDD|215487 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 31.9 bits (73), Expect = 0.79
Identities = 12/16 (75%), Positives = 12/16 (75%)
Query: 325 YGLPISRLYARYFHGD 340
YGLP RLYA YF GD
Sbjct: 132 YGLPADRLYATYFGGD 147
Score = 31.9 bits (73), Expect = 0.79
Identities = 12/16 (75%), Positives = 12/16 (75%)
Query: 427 YGLPISRLYARYFHGD 442
YGLP RLYA YF GD
Sbjct: 132 YGLPADRLYATYFGGD 147
>gnl|CDD|99977 cd03805, GT1_ALG2_like, This family is most closely related to the
GT1 family of glycosyltransferases. ALG2, a
1,3-mannosyltransferase, in yeast catalyzes the
mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate
and Man(1)GlcNAc(2)-dolichol diphosphate to form
Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of
this enzyme causes an abnormal accumulation of
Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol,
which is associated with a type of congenital disorders
of glycosylation (CDG), designated CDG-Ii, in humans.
Length = 392
Score = 31.8 bits (73), Expect = 0.86
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 66 PDNLLRMPSVGLVNEWYAMSFDEILEFEK--ADS---NSTDTLDKFCKALVKIRNRHSDV 120
PD LL L+ Y FD + EF AD NS T F K + +V
Sbjct: 125 PDQLL-AQRGSLLKRLYRKPFDWLEEFTTGMADKIVVNSNFTASVFKKTFPSLAKNPREV 183
Query: 121 V 121
V
Sbjct: 184 V 184
>gnl|CDD|176899 cd08890, SRPBCC_PITPNC1_like, Lipid-binding SRPBCC domain of
mammalian PITPNC1,and related proteins (Class IIB
PITPs). This subgroup includes the N-terminal SRPBCC
(START/RHO_alpha_C /PITP /Bet_v1/CoxG/CalC) domain of
mammalian Class IIB phosphatidylinositol transfer
protein (PITP), PITPNC1/RdgBbeta, and related proteins.
These are metazoan proteins belonging to the PITP family
of lipid transfer proteins, and to the SRPBCC domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. In vitro, PITPs bind phosphatidylinositol
(PtdIns), as well as phosphatidylcholine (PtdCho) but
with a lower affinity. They transfer these lipids from
one membrane compartment to another. The cellular roles
of PITPs include inositol lipid signaling, PtdIns
metabolism, and membrane trafficking. Mammalian PITPNC1
contains an amino-terminal SRPBCC PITP-like domain and a
short carboxyl-terminal domain. It is a cytoplasmic
protein, and is ubiquitously expressed. It can transfer
phosphatidylinositol (PtdIns) in vitro with a similar
ability to other PITPs.
Length = 250
Score = 30.5 bits (69), Expect = 1.5
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 78 VNEWYAMSFDEILEFEKADSNSTD 101
V+EWY M+ D++ E+E+ T+
Sbjct: 223 VDEWYDMTMDDVREYERTIQEKTN 246
>gnl|CDD|236846 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
Length = 475
Score = 30.6 bits (70), Expect = 1.9
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 7/93 (7%)
Query: 269 IEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLP 328
I +S E + + + D+G GIP +F YS P+P+ T G GL
Sbjct: 390 ITLSAEVDGEQVALSVEDQGPGIPDYALPRIFERFYSL-PRPANGRKST------GLGLA 442
Query: 329 ISRLYARYFHGDIMLLSCDGLGTDAIIYLKALS 361
R AR G++ L + G A + L
Sbjct: 443 FVREVARLHGGEVTLRNRPEGGVLATLTLPRHF 475
>gnl|CDD|214830 smart00813, Alpha-L-AF_C, Alpha-L-arabinofuranosidase C-terminus.
This entry represents the C terminus (approximately 200
residues) of bacterial and eukaryotic
alpha-L-arabinofuranosidase. This catalyses the
hydrolysis of non-reducing terminal
alpha-L-arabinofuranosidic linkages in
L-arabinose-containing polysaccharides.
Length = 189
Score = 29.5 bits (67), Expect = 2.4
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 11/52 (21%)
Query: 242 YHMLFELFKNSMRATV--------EHHTDTDVLPPIEVSVVRGKE--DICVK 283
Y++ F+LF TV + + +P ++ S + ++ + VK
Sbjct: 70 YYV-FQLFSKHQGGTVLPVTISSPTYDGEDSDVPALDASASKDEDGGSLTVK 120
>gnl|CDD|226655 COG4192, COG4192, Signal transduction histidine kinase regulating
phosphoglycerate transport system [Signal transduction
mechanisms].
Length = 673
Score = 30.3 bits (68), Expect = 2.6
Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
Query: 278 EDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYF 337
E + + + D G G P + D L ++T SK G G GL IS+
Sbjct: 597 EMLRIAIIDNGQGWPHELVDKLLT-PFTT----SKE-------VGLGLGLSISQSLMEQM 644
Query: 338 HGDIMLLSCDGLGTDAIIYLK 358
G + L S L +A++ L+
Sbjct: 645 QGRLALAS--TLTKNAMVILE 663
>gnl|CDD|219243 pfam06964, Alpha-L-AF_C, Alpha-L-arabinofuranosidase C-terminus.
This family represents the C-terminus (approximately 200
residues) of bacterial and eukaryotic
alpha-L-arabinofuranosidase (EC:3.2.1.55). This
catalyzes the hydrolysis of nonreducing terminal
alpha-L-arabinofuranosidic linkages in
L-arabinose-containing polysaccharides.
Length = 192
Score = 29.5 bits (67), Expect = 2.7
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 9/46 (19%)
Query: 242 YHMLFELFKNSMRATV--------EHHTDTDVLPPIEVSVVRGKED 279
Y++ F++F TV + TD +PP++ S ++
Sbjct: 72 YYV-FQMFSKHQGGTVLPVTVSSPTYVTDGSDVPPLDASASLDEDG 116
>gnl|CDD|237526 PRK13837, PRK13837, two-component VirA-like sensor kinase;
Provisional.
Length = 828
Score = 30.4 bits (69), Expect = 2.7
Identities = 32/139 (23%), Positives = 50/139 (35%), Gaps = 20/139 (14%)
Query: 227 EKGEPVRIIYVPSHLYHMLFELFKNS-----MRATVEHHTDTDVLP-PIEVS--VVRGKE 278
+ EP + P+ L +L L N+ V+ L P +S V+
Sbjct: 547 QDQEPAVVEGNPAELQQVLMNLCSNAAQAMDGAGRVDISLSRAKLRAPKVLSHGVLPPGR 606
Query: 279 DICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFH 338
+ +++SD G GI +V +F ++T G G GL
Sbjct: 607 YVLLRVSDTGAGIDEAVLPHIFEPFFTTRA------------GGTGLGLATVHGIVSAHA 654
Query: 339 GDIMLLSCDGLGTDAIIYL 357
G I + S G GT +YL
Sbjct: 655 GYIDVQSTVGRGTRFDVYL 673
>gnl|CDD|223935 COG1003, GcvP, Glycine cleavage system protein P
(pyridoxal-binding), C-terminal domain [Amino acid
transport and metabolism].
Length = 496
Score = 30.0 bits (68), Expect = 3.2
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 84 MSFDEILE----FEKADSNSTDTLDKFCKALVKIRN 115
M F I+ E +S S + LD+F A++ IR
Sbjct: 411 MYFPLIVAGTLMIEPTESESKEELDRFIDAMIAIRE 446
>gnl|CDD|225827 COG3290, CitA, Signal transduction histidine kinase regulating
citrate/malate metabolism [Signal transduction
mechanisms].
Length = 537
Score = 29.9 bits (68), Expect = 3.3
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 11/89 (12%)
Query: 269 IEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLP 328
IE+S+ +++ ++++D G GIP V D +F ST K+ G GL
Sbjct: 452 IELSLSDRGDELVIEVADTGPGIPPEVRDKIFEKGVST-----KNTGGR------GIGLY 500
Query: 329 ISRLYARYFHGDIMLLSCDGLGTDAIIYL 357
+ + G I + S G GT IY+
Sbjct: 501 LVKQLVERLGGSIEVESEKGQGTRFSIYI 529
>gnl|CDD|226370 COG3852, NtrB, Signal transduction histidine kinase, nitrogen
specific [Signal transduction mechanisms].
Length = 363
Score = 29.6 bits (67), Expect = 4.0
Identities = 32/151 (21%), Positives = 55/151 (36%), Gaps = 31/151 (20%)
Query: 225 EYEKGEPVRII--YVPS---------HLYHMLFELFKNSMRATVEHHTDTDVL-----PP 268
E E + VR+I Y PS L + L +N+ +A + +
Sbjct: 215 EAEFADNVRLIRDYDPSLPEVLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTG 274
Query: 269 IEVSVVRGKEDICVKMS--DKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYG 326
I++++ + + + + D G G+P + D LF+ M S G G G
Sbjct: 275 IQLTIAGTRYRLALPLEVIDNGPGVPPDLQDHLFYPMVSGREG------------GTGLG 322
Query: 327 LPISRLYARYFHGDIMLLSCDGLGTDAIIYL 357
L +++ G I S G T + L
Sbjct: 323 LALAQNLIDQHGGKIEFDSWPG-RTVFRVLL 352
>gnl|CDD|178035 PLN02414, PLN02414, glycine dehydrogenase (decarboxylating).
Length = 993
Score = 29.7 bits (67), Expect = 4.2
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 90 LEFEKADSNSTDTLDKFCKALVKIRNRHSDV 120
L E +S S LD+FC AL+ IR +D+
Sbjct: 881 LMIEPTESESKAELDRFCDALISIREEIADI 911
>gnl|CDD|131701 TIGR02653, Lon_rel_chp, conserved hypothetical protein. This model
describes a protein family of unknown function, about
690 residues in length, in which some members show
C-terminal sequence similarity to pfam05362, which is
the Lon protease C-terminal proteolytic domain, from
MEROPS family S16. However, the annotated catalytic
sites of E. coli Lon protease are not conserved in
members of this family. Members have a motif
GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif
GxxGxGK[ST] [Hypothetical proteins, Conserved].
Length = 675
Score = 29.4 bits (66), Expect = 5.0
Identities = 11/44 (25%), Positives = 20/44 (45%)
Query: 75 VGLVNEWYAMSFDEILEFEKADSNSTDTLDKFCKALVKIRNRHS 118
+GLV W ++FDE+ E D + + + + R + S
Sbjct: 262 IGLVGMWDVVAFDEVAGIEFKDKDGVQIMKDYMASGSFARGKES 305
>gnl|CDD|237951 PRK15347, PRK15347, two component system sensor kinase SsrA;
Provisional.
Length = 921
Score = 29.6 bits (67), Expect = 5.2
Identities = 27/102 (26%), Positives = 44/102 (43%), Gaps = 12/102 (11%)
Query: 269 IEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYMYSTAPQPSKSDAHTVPLAGYGYGLP 328
I + V R ++ +C + D G GI +F Y ++D H+ G G GL
Sbjct: 534 IRLRVKRHEQQLCFTVEDTGCGIDIQQQQQIFTPFY-------QADTHS---QGTGLGLT 583
Query: 329 ISRLYARYFHGDIMLLSCDGLGTDAIIYLKALSNEANELLPI 370
I+ A+ G++ L S G+G+ + L NE P+
Sbjct: 584 IASSLAKMMGGELTLFSTPGVGSCFSLVLPL--NEYAPPEPL 623
>gnl|CDD|225083 COG2172, RsbW, Anti-sigma regulatory factor (Ser/Thr protein
kinase) [Signal transduction mechanisms].
Length = 146
Score = 28.1 bits (63), Expect = 6.2
Identities = 17/95 (17%), Positives = 31/95 (32%), Gaps = 17/95 (17%)
Query: 245 LFELFKNSMRATVEHHTDTDVLP-PIEVSVVRGKEDICVKMSDKGGGIPRSVTDMLFHYM 303
+ E N V+H D I + V + +++ D+G GI +
Sbjct: 45 VSEALTN----AVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGIE--DLEESLGPG 98
Query: 304 YSTAPQPSKSDAHTVPLAGYGYGLPISRLYARYFH 338
+TA + G GL +++ F
Sbjct: 99 DTTAEGLQEG----------GLGLFLAKRLMDEFS 123
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
0.321 0.136 0.406
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,403,274
Number of extensions: 2369175
Number of successful extensions: 1961
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1942
Number of HSP's successfully gapped: 44
Length of query: 482
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 381
Effective length of database: 6,457,848
Effective search space: 2460440088
Effective search space used: 2460440088
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 61 (27.2 bits)