RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4734
(367 letters)
>gnl|CDD|219818 pfam08393, DHC_N2, Dynein heavy chain, N-terminal region 2.
Dyneins are described as motor proteins of eukaryotic
cells, as they can convert energy derived from the
hydrolysis of ATP to force and movement along
cytoskeletal polymers, such as microtubules. This region
is found C-terminal to the dynein heavy chain N-terminal
region 1 (pfam08385) in many members of this family. No
functions seem to have been attributed specifically to
this region.
Length = 408
Score = 212 bits (541), Expect = 3e-65
Identities = 75/129 (58%), Positives = 99/129 (76%)
Query: 1 MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQ 60
+Q++L++WL+VQ W+YLEPIFSS DI +Q+PEES+ F VD+ WK +M NKDP++L+
Sbjct: 216 IQEVLELWLKVQRKWVYLEPIFSSSDIKKQLPEESKRFSNVDKEWKKLMKKANKDPNVLE 275
Query: 61 ATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRV 120
+ +L+ K N LE IQK LN+YLE KR FPRF+FLSND+LLEILS++KDP V
Sbjct: 276 VCNIPGLLEKLEKLNEQLEKIQKSLNEYLESKRSAFPRFYFLSNDDLLEILSQSKDPTAV 335
Query: 121 QPHLKKIFE 129
QPHLKK+FE
Sbjct: 336 QPHLKKLFE 344
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 54.2 bits (130), Expect = 8e-08
Identities = 30/108 (27%), Positives = 62/108 (57%), Gaps = 6/108 (5%)
Query: 231 SITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRK-WIMFDG-PIDAVWIENMNTV 288
M +++G D + ++RD + + R + R+ +F+ P+++ ++E+ N +
Sbjct: 1861 PRNMREIFGHRDELTGDFRDSLKVQDLR---RNIHGGRECLFIFESIPVESSFLEDFNPL 1917
Query: 289 LDDNKKLCLING-EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE 335
LD+N+ LCL +G E I++ + +FE +LE + AT++RV ++Y E
Sbjct: 1918 LDNNRFLCLFSGNERIRIPENLRFVFESTSLEKDTEATLTRVFLVYME 1965
Score = 37.7 bits (87), Expect = 0.011
Identities = 20/119 (16%), Positives = 36/119 (30%), Gaps = 15/119 (12%)
Query: 240 EFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLIN 299
++ A E R L +M + + ++E + K
Sbjct: 1217 KYFDADMELRQFFLMFNREDMEARLADSKMEYEVER-----YVEKTKAEVSSLKLELSSV 1271
Query: 300 GEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNE 358
GE ++ NL + V R + Y + +S FL + K L+E
Sbjct: 1272 GE-------GQVVV--SNLG-SIGDKVGRCLVEYDSISRLSTKGVFLDELGDTKRYLDE 1320
Score = 33.4 bits (76), Expect = 0.26
Identities = 17/108 (15%), Positives = 36/108 (33%), Gaps = 7/108 (6%)
Query: 23 SSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEME--DMLKNFNKCNLMLEL 80
S ED+M +P ++ + I V + + D L F K ++
Sbjct: 636 SLEDLMPLIPHAVHRKMSLVSGVRGIYKRVVSGCEAINTILEDVGDDLDLFYK---EMDQ 692
Query: 81 IQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIF 128
+ + L + R +EL++ + E ++ + K
Sbjct: 693 VFMSIEKVLGLRWREVERA--SEVEELMDRVRELENRVYSYRFFVKKI 738
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 39.2 bits (92), Expect = 6e-04
Identities = 33/155 (21%), Positives = 55/155 (35%), Gaps = 31/155 (20%)
Query: 184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDS 243
G+++VG GK+ LA+ L + + + + T L G +
Sbjct: 1 GVLLVGPPGTGKS----ELAERLAAALSNRPVFY--------VQLTRDTTEEDLKGRRNI 48
Query: 244 A--SHEWRDGILAKTFREMAVSTTPDRKWIMFDGPID---AVWIENMNTVLDDNKKLCLI 298
W DG L + RE I I+ + ++ ++LD+ + L
Sbjct: 49 DPGGASWVDGPLVRAARE---------GEIAVLDEINRANPDVLNSLLSLLDERRLLLPE 99
Query: 299 NGEIIKMSNT-MNLIFECENL----EFASPATVSR 328
GE++K + LI L SPA SR
Sbjct: 100 GGELVKAAPDGFRLIATMNPLDRGLNELSPALRSR 134
>gnl|CDD|239426 cd03310, CIMS_like, CIMS - Cobalamine-independent methonine
synthase, or MetE. Many members have been characterized
as 5-methyltetrahydropteroyltriglutamate-homocysteine
methyltransferases, EC:2.1.1.14, mostly from bacteria
and plants. This enzyme catalyses the last step in the
production of methionine by transferring a methyl group
from 5-methyltetrahydrofolate to L-homocysteine without
using an intermediate methyl carrier. The active enzyme
has a dual (beta-alpha)8-barrel structure, and this
model covers both the N-and C-terminal barrel, and some
single-barrel sequences, mostly from Archaea. It is
assumed that the homologous N-terminal barrel has
evolved from the C-terminus via gene duplication and has
subsequently lost binding sites, and it seems as if the
two barrels forming the active enzyme may sometimes
reside on different polypeptides. The C-terminal domain
incorporates the Zinc ion, which binds and activates
homocysteine. Side chains from both barrels contribute
to the binding of the folate substrate.
Length = 321
Score = 32.4 bits (74), Expect = 0.34
Identities = 39/229 (17%), Positives = 71/229 (31%), Gaps = 33/229 (14%)
Query: 86 NDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLL 145
E FF L + +E+ + + + ++ L
Sbjct: 29 EWPEEALFTALGSFFELQLEAGVEVPTY-------GQLGDDMIGRFLEVLVDLETGTRFF 81
Query: 146 ---FFPR--------FFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGG 194
FF R F L D L E+ K+ L+V+ + L+ + G
Sbjct: 82 DNNFFYRPPEAKIEAFLPLELDYLEEVAEAYKEALKVKVVVTGPLT--LALLAFLPN--G 137
Query: 195 KTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILA 254
+ AY+ LA SL + ++ +K I+ S+ G E D L
Sbjct: 138 EPDAYEDLAKSLAEFLREQVKELKNRGIVVVQIDEPSLGA---VGAGAFEDLEIVDAALE 194
Query: 255 KTFREMAVST-----TPDRKWIMFDGPIDAVWIE---NMNTVLDDNKKL 295
+ + P + + +D + + + L+D KKL
Sbjct: 195 EVSLKSGGDVEVHLCAPLDYEALLELGVDVIGFDAAALPSKYLEDLKKL 243
>gnl|CDD|203379 pfam06028, DUF915, Alpha/beta hydrolase of unknown function
(DUF915). This family consists of several bacterial
proteins of unknown function. Members of this family
have an alpha/beta hydrolase fold.
Length = 255
Score = 31.9 bits (73), Expect = 0.42
Identities = 23/82 (28%), Positives = 32/82 (39%), Gaps = 11/82 (13%)
Query: 173 PHLKKIFEVRHGLMVVGESFGGKT--TAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK 230
P L K L+ +G F G+T QTLA L D K+ YK P
Sbjct: 131 PQLNK-------LVTIGGPFNGETNNDLGQTLAIVLKDGPKNKTPMYDYLIDNYKKKIPS 183
Query: 231 SITMGQLYGEFDSASHEWRDGI 252
+ + + G+ D+ DGI
Sbjct: 184 DLEVLNIAGDLDNGKQS--DGI 203
>gnl|CDD|197609 smart00257, LysM, Lysin motif.
Length = 44
Score = 27.4 bits (62), Expect = 1.3
Identities = 8/33 (24%), Positives = 19/33 (57%)
Query: 204 DSLTDIAAKKSATMKEFKTGYKIINPKSITMGQ 236
D+L+ IA + ++ + I++P ++ +GQ
Sbjct: 8 DTLSSIARRYGISVSDLLELNNILDPDNLQVGQ 40
>gnl|CDD|235246 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 30.6 bits (70), Expect = 1.5
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 17/74 (22%)
Query: 39 KTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLML-----------ELIQKGLND 87
KT D+I + L NK P L E+E +++ F K M ELI+KGL
Sbjct: 272 KTADEILEKAGLDPNKKPKELTREELERLVEAFKKYKFMAPPTACLSPIGEELIEKGL-- 329
Query: 88 YLEKKRLFFPRFFF 101
K++ P F
Sbjct: 330 ----KKILKPEFVA 339
>gnl|CDD|224284 COG1365, COG1365, Predicted ATPase (PP-loop superfamily) [General
function prediction only].
Length = 255
Score = 30.2 bits (68), Expect = 1.5
Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 22/70 (31%)
Query: 142 LNLLFFPRFFFLSNDELLEILSETKD--------PL-----RVQPHLKK------IFEVR 182
LNL P F L+ DEL IL PL + PHLK+ + EVR
Sbjct: 180 LNL---PAFLALTKDELRSILKWNGYELEMKYGCPLLREVHKRHPHLKRFSIQRVLREVR 236
Query: 183 HGLMVVGESF 192
G++ GE+
Sbjct: 237 AGVLEEGEAL 246
>gnl|CDD|218788 pfam05872, DUF853, Bacterial protein of unknown function (DUF853).
This family consists of several bacterial proteins of
unknown function. BMEI1370 is thought to be an ATPase.
Length = 504
Score = 30.5 bits (69), Expect = 1.6
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 157 ELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDI 209
E L PL + + RHGL + G + GKT Q LA+S +D
Sbjct: 1 EPLLGAGTPGQPLGLALGMAN----RHGL-IAGATGTGKTVTLQVLAESFSDA 48
>gnl|CDD|224034 COG1109, {ManB}, Phosphomannomutase [Carbohydrate transport and
metabolism].
Length = 464
Score = 30.0 bits (68), Expect = 2.1
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 196 TTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASH-------EW 248
TT +LA L IA K + K G K I K G ++G + + H
Sbjct: 287 TTVMSSLA--LEKIAKKLGGKVVRTKVGDKYIAEKMRENGAVFG-GEESGHIIFPDHVRT 343
Query: 249 RDGILA 254
DG+LA
Sbjct: 344 GDGLLA 349
>gnl|CDD|213233 cd03266, ABC_NatA_sodium_exporter, ATP-binding cassette domain of
the Na+ transporter. NatA is the ATPase component of a
bacterial ABC-type Na+ transport system called NatAB,
which catalyzes ATP-dependent electrogenic Na+ extrusion
without mechanically coupled proton or K+ uptake. NatB
possess six putative membrane spanning regions at its
C-terminus. In B. subtilis, NatAB is inducible by agents
such as ethanol and protonophores, which lower the
proton-motive force across the membrane. The closest
sequence similarity to NatA is exhibited by DrrA of the
two-component daunorubicin- and doxorubicin-efflux
system. Hence, the functional NatAB is presumably
assembled with two copies of a single ATP-binding
protein and a single integral membrane protein.
Length = 218
Score = 29.3 bits (66), Expect = 2.8
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 115 KDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPH 174
K+P + L S L L A NL +F + L DEL L E D L ++
Sbjct: 71 KEPAEARRRLG-FVSDSTGLYDRLTARENLEYFAGLYGLKGDELTARLEELADRLGMEEL 129
Query: 175 LKK 177
L +
Sbjct: 130 LDR 132
>gnl|CDD|233210 TIGR00959, ffh, signal recognition particle protein. This model
represents Ffh (Fifty-Four Homolog), the protein
component that forms the bacterial (and organellar)
signal recognition particle together with a 4.5S RNA.
Ffh is a GTPase homologous to eukaryotic SRP54 and also
to the GTPase FtsY (TIGR00064) that is the receptor for
the signal recognition particle [Protein fate, Protein
and peptide secretion and trafficking].
Length = 428
Score = 29.6 bits (67), Expect = 3.1
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 6/59 (10%)
Query: 155 NDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKK 213
++EL+ IL L + + +++VG GKTT LA L KK
Sbjct: 78 HEELVAILGGENASLNLAKKPPTV------ILMVGLQGSGKTTTCGKLAYYLKKKQGKK 130
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 29.1 bits (66), Expect = 3.1
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 179 FEVRHG--LMVVGESFGGKTTAYQTLADSLT 207
F++ G L +VGES GKTT L+ L
Sbjct: 27 FDLYPGEVLGIVGESGSGKTTLLNALSARLA 57
>gnl|CDD|182482 PRK10467, PRK10467, hydrogenase 2 large subunit; Provisional.
Length = 567
Score = 29.4 bits (66), Expect = 3.5
Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 191 SFGGKTTAYQTLADSLTDIAAKKSATMKEF---KTGYKIINPKSITMGQLY 238
+F GKT LA+ L +AA + +T + Y+ + ++ + QL+
Sbjct: 369 TFYGKTVEVGPLANMLVKLAAGRESTQNKLNEIVAIYQKLTGNTLEVAQLH 419
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein PhnK.
Members of this family are the PhnK protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and the
adjacent-encoded PhnL resemble transporter ATP-binding
proteins but are suggested, based on mutatgenesis
studies, to be part of this complex rather than part of
a transporter per se [Central intermediary metabolism,
Phosphorus compounds].
Length = 253
Score = 29.0 bits (65), Expect = 3.7
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 179 FEVRHG--LMVVGESFGGKTTAYQTLADSLT 207
F++ G L +VGES GK+T LA L
Sbjct: 24 FDLYPGEVLGIVGESGSGKSTLLGCLAGRLA 54
>gnl|CDD|222733 pfam14396, CFTR_R, Cystic fibrosis TM conductance regulator (CFTR),
regulator domain.
Length = 213
Score = 28.6 bits (64), Expect = 3.9
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 231 SITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKW 270
S +G FD S E R+ IL +T R +V W
Sbjct: 4 SKLLG--LDSFDQFSAERRNSILTETLRRFSVDGDAGASW 41
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 28.2 bits (63), Expect = 6.8
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 179 FEVRHG--LMVVGESFGGKTTAYQTLADSLT 207
F++ G L +VGES GKTT + ++ LT
Sbjct: 27 FDLYPGEVLGIVGESGSGKTTLLKCISGRLT 57
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. Septins are a
conserved family of GTP-binding proteins associated with
diverse processes in dividing and non-dividing cells.
They were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of the
cell cortex and exocytosis. In humans, 12 septin genes
generate dozens of polypeptides, many of which comprise
heterooligomeric complexes. Since septin mutants are
commonly defective in cytokinesis and formation of the
neck formation of the neck filaments/septin rings,
septins have been considered to be the primary
constituents of the neck filaments. Septins belong to
the GTPase superfamily for their conserved GTPase motifs
and enzymatic activities.
Length = 275
Score = 27.9 bits (63), Expect = 7.8
Identities = 12/40 (30%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 185 LMVVGESFGGKTTAYQTLADSL--TDIAAKKSATMKEFKT 222
+MVVGES GK+ T ++L T + K
Sbjct: 7 IMVVGESGLGKS----TFINTLFGTKLYPSKYPPAPGEHI 42
>gnl|CDD|236453 PRK09287, PRK09287, 6-phosphogluconate dehydrogenase; Validated.
Length = 459
Score = 28.2 bits (64), Expect = 8.0
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 7/33 (21%)
Query: 182 RHG--LMVVGESFGGKTTAYQTLADSLTDIAAK 212
HG +M GG+ AY+ +A L IAAK
Sbjct: 123 LHGPSIMP-----GGQKEAYELVAPILEKIAAK 150
>gnl|CDD|236592 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 552
Score = 28.2 bits (64), Expect = 8.4
Identities = 25/77 (32%), Positives = 35/77 (45%), Gaps = 14/77 (18%)
Query: 158 LLEILSETKDPLRVQPHLKKIFEVRHGLMV-VGESFGGKTTAYQTLA-------DSLTDI 209
LLE LS K R P KIFE+ G +V + ES T + LA S T+I
Sbjct: 425 LLEFLSNNKH--REYPQ--KIFEI--GDVVLIDESTETGTRTERKLAAAIAHSEASFTEI 478
Query: 210 AAKKSATMKEFKTGYKI 226
+ A ++E Y++
Sbjct: 479 KSVVQALLRELGIEYEV 495
>gnl|CDD|240545 cd13140, MATE_like_1, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. MATE has also been
identified as a large multigene family in plants, where
the proteins are linked to disease resistance. A number
of family members are involved in the synthesis of
peptidoglycan components in bacteria.
Length = 435
Score = 27.9 bits (63), Expect = 8.6
Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 124 LKKIFEASMALIS--GLVATLNLLFFPRF---FFLSNDELLEI 161
++K ++ ++ + S GL ATL L FF F+ + E + I
Sbjct: 306 IRKGYKTALKIASAIGLFATLLLFFFGEPLFSLFIPDPETIAI 348
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 28.0 bits (62), Expect = 9.5
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 185 LMVVGESFGGKTTAYQTLA----DSLTDIAAKKSATMKEFKTGYKIINPKSI 232
++VGE+ GKTT Q LA LT I + M + GYK IN ++
Sbjct: 467 TLLVGETGTGKTTMIQYLALKLHFKLTVINKSQQTEMSDDLGGYKPINGSTL 518
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
0.322 0.136 0.403
Gapped
Lambda K H
0.267 0.0867 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,912,233
Number of extensions: 1843227
Number of successful extensions: 1979
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1976
Number of HSP's successfully gapped: 52
Length of query: 367
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 269
Effective length of database: 6,590,910
Effective search space: 1772954790
Effective search space used: 1772954790
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: 60 (26.6 bits)