RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3374
(72 letters)
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 83.3 bits (206), Expect = 1e-20
Identities = 36/64 (56%), Positives = 43/64 (67%)
Query: 6 RRGNDSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTM 65
RG G RVV QLLTELDG+E EGV V+ AT+RPD +DPALLRPGR ++ +
Sbjct: 350 GRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPL 409
Query: 66 PDLA 69
PDL
Sbjct: 410 PDLE 413
Score = 46.4 bits (110), Expect = 1e-07
Identities = 29/64 (45%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 6 RRGNDSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTM 65
+R +D V+ RVV QLL +DG++ + V V+GAT+RPD +DPA RPGR + +
Sbjct: 91 KRSSDQGEVERRVVAQLLALMDGLKRGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNL 149
Query: 66 PDLA 69
PD A
Sbjct: 150 PDEA 153
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 81.9 bits (202), Expect = 3e-20
Identities = 35/62 (56%), Positives = 43/62 (69%), Gaps = 1/62 (1%)
Query: 7 RGND-STGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTM 65
RG T V DR+VNQLLTE+DG++ L V V+ AT+RPDI+DPALLRPGR +
Sbjct: 562 RGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPP 621
Query: 66 PD 67
PD
Sbjct: 622 PD 623
Score = 61.5 bits (149), Expect = 5e-13
Identities = 29/54 (53%), Positives = 38/54 (70%)
Query: 14 VKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPD 67
V+ RVV QLLT +DG++G V V+GAT+RPD +DPAL RPGR + +PD
Sbjct: 294 VEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPD 347
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 71.9 bits (177), Expect = 9e-17
Identities = 30/70 (42%), Positives = 40/70 (57%), Gaps = 5/70 (7%)
Query: 4 GYRRGNDSTGVKDRVVN----QLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGS 59
G +R + T DR V +LL +LDG + V V+ AT+RPDI+DPALLRPGR
Sbjct: 257 GAKRFDSGTS-GDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDR 315
Query: 60 SVHCTMPDLA 69
+ +PD
Sbjct: 316 KIEFPLPDEE 325
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 71.7 bits (176), Expect = 1e-16
Identities = 31/57 (54%), Positives = 41/57 (71%)
Query: 11 STGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPD 67
S+ V+ VV QLL E+DGVE L+ V V+GA++R D+IDPA+LRPGRL + PD
Sbjct: 310 SSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPD 366
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 71.5 bits (176), Expect = 1e-16
Identities = 30/62 (48%), Positives = 41/62 (66%), Gaps = 3/62 (4%)
Query: 8 GNDSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPD 67
GND +++ +NQLL E+DG GV V+ AT+RPD++DPALLRPGR V +PD
Sbjct: 170 GND---EREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPD 226
Query: 68 LA 69
+
Sbjct: 227 IK 228
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 68.5 bits (168), Expect = 2e-15
Identities = 31/65 (47%), Positives = 44/65 (67%), Gaps = 3/65 (4%)
Query: 3 TGYRRGNDSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVH 62
G GND +++ +NQLLTE+DG +G +GV V+ AT+R DI+D ALLRPGR +
Sbjct: 293 AGIGGGNDE---REQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQIT 349
Query: 63 CTMPD 67
++PD
Sbjct: 350 VSLPD 354
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 68.1 bits (166), Expect = 2e-15
Identities = 28/54 (51%), Positives = 41/54 (75%)
Query: 15 KDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPDL 68
+++ +NQ+L E+DG EG EG+ V+ AT+RPD++DPALLRPGR V +PD+
Sbjct: 271 REQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDV 324
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 66.8 bits (164), Expect = 5e-15
Identities = 27/68 (39%), Positives = 38/68 (55%), Gaps = 5/68 (7%)
Query: 4 GYRRGNDSTGVKDRVVN----QLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGS 59
+R + T DR V QLL E+DG + V ++ AT+R DI+DPA+LRPGR
Sbjct: 237 AAKRTDSGTS-GDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDR 295
Query: 60 SVHCTMPD 67
+ +PD
Sbjct: 296 IIEVPLPD 303
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 65.8 bits (161), Expect = 1e-14
Identities = 28/50 (56%), Positives = 36/50 (72%)
Query: 20 NQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPDLA 69
NQLL E+DG G EGV V+ AT+RPD++DPALLRPGR + +PD+
Sbjct: 274 NQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIK 323
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 64.8 bits (158), Expect = 3e-14
Identities = 31/69 (44%), Positives = 39/69 (56%), Gaps = 5/69 (7%)
Query: 4 GYRRGNDSTGVKDRVVN----QLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGS 59
+R + T DR V QLL ELDG + V V+ AT+RPDI+DPALLRPGR
Sbjct: 228 AAKRTDSGTS-GDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDR 286
Query: 60 SVHCTMPDL 68
+ +PD
Sbjct: 287 IIEVPLPDF 295
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 56.8 bits (138), Expect = 3e-12
Identities = 30/53 (56%), Positives = 34/53 (64%), Gaps = 2/53 (3%)
Query: 6 RRGNDSTGVKDRVVNQLLTELDGVEG-LEGVYVVGATSRPDIIDPALLRPGRL 57
RG+ RVVNQLLTELDG L V V+ AT+RPD +DPALLR GR
Sbjct: 72 SRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPALLR-GRF 123
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 54.8 bits (132), Expect = 1e-10
Identities = 23/51 (45%), Positives = 34/51 (66%)
Query: 17 RVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHCTMPD 67
R++ +LL ++DG + V V+ AT+R D +DPALLRPGRL + +PD
Sbjct: 267 RILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPD 317
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 50.9 bits (122), Expect = 2e-09
Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 6 RRGNDSTGVKD--RVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVHC 63
R S G K+ R + +LL +LDG + V V+ AT+R + +DPAL+RPGR+ +
Sbjct: 292 RYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEF 351
Query: 64 TMPD 67
PD
Sbjct: 352 PNPD 355
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 47.9 bits (114), Expect = 3e-08
Identities = 19/34 (55%), Positives = 28/34 (82%)
Query: 18 VVNQLLTELDGVEGLEGVYVVGATSRPDIIDPAL 51
+VN LLTELDG++ EGV + AT+RP+++DPA+
Sbjct: 238 IVNALLTELDGIKENEGVVTIAATNRPELLDPAI 271
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 36.7 bits (85), Expect = 2e-04
Identities = 16/52 (30%), Positives = 24/52 (46%)
Query: 11 STGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRPGRLGSSVH 62
S G ++ ++ L T D E V V+GAT+RP + D RL +
Sbjct: 97 SRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIV 148
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 25.6 bits (56), Expect = 2.2
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 37 VVGATSRPDIIDPALLRPGRL 57
V+ +T P +DPAL+ P +L
Sbjct: 1775 VIASTHIPQKVDPALIAPNKL 1795
>gnl|CDD|139605 PRK13484, PRK13484, putative iron-regulated outer membrane
virulence protein; Provisional.
Length = 682
Score = 25.4 bits (55), Expect = 2.7
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 27 DGVEGLEGVYVVGATSRPDI 46
D V+ +EG+ + G +PDI
Sbjct: 69 DAVKDVEGISITGGNEKPDI 88
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 24.6 bits (53), Expect = 4.4
Identities = 10/48 (20%), Positives = 21/48 (43%)
Query: 7 RGNDSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALLRP 54
D+ ++ + L L ++ + + V+ T+ + PALLR
Sbjct: 89 SLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR 136
>gnl|CDD|223911 COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].
Length = 1009
Score = 24.5 bits (54), Expect = 6.3
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 10 DSTGVKDRVVNQLLTELDGVEGLEGVYVVGATSRPDI---IDPALL 52
S+ + D + + EL V G+ V + GA + +DPA L
Sbjct: 148 SSSDLTDYAASNVRDELSRVPGVGSVQLFGA-QEYAMRIWLDPAKL 192
>gnl|CDD|216132 pfam00814, Peptidase_M22, Glycoprotease family. The Peptidase M22
proteins are part of the HSP70-actin superfamily. The
region represented here is an insert into the fold and
is not found in the rest of the family (beyond the
Peptidase M22 family). Included in this family are the
Rhizobial NodU proteins and the HypF regulator. This
region also contains the histidine dyad believed to
coordinate the metal ion and hence provide catalytic
activity. Interestingly the histidines are not well
conserved, and there is a lack of experimental evidence
to support peptidase activity as a general property of
this family. There also appear to be instances of this
domain outside of the HSP70-actin superfamily.
Length = 271
Score = 23.9 bits (52), Expect = 7.9
Identities = 6/29 (20%), Positives = 10/29 (34%)
Query: 29 VEGLEGVYVVGATSRPDIIDPALLRPGRL 57
+G Y + + D A + RL
Sbjct: 119 YAAKDGRYEILGETLDDAAGEAFDKVARL 147
>gnl|CDD|224917 COG2006, COG2006, Uncharacterized conserved protein [Function
unknown].
Length = 293
Score = 23.9 bits (52), Expect = 8.3
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 17 RVVNQLLTELDGVEGLEGVYVVGATSRPDIIDPALL 52
VV LT +DG+ G+EG S +P +L
Sbjct: 190 LVVKPDLTIMDGIIGMEG----NGPSGGTPREPGIL 221
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
0.318 0.140 0.408
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,745,547
Number of extensions: 290041
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 25
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
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: 53 (24.6 bits)