RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16433
(297 letters)
>gnl|CDD|132240 TIGR03196, pucD, xanthine dehydrogenase D subunit. This gene has
been characterized in B. subtilis as the molybdopterin
binding-subunit of xanthine dehydrogenase (pucD), acting
in conjunction with pucC, the FAD-binding subunit and
pucE, the FeS-binding subunit. The more common XDH
complex (GenProp0640) includes the xdhB gene which is
related to pucD. It appears that most of the relatives
of pucD outside of this narrow clade are involved in
other processes as they are found in unrelated genomic
contexts, contain the more common XDH complex and/or do
not appear to process purines to allantoin.
Length = 768
Score = 31.2 bits (70), Expect = 0.77
Identities = 22/90 (24%), Positives = 29/90 (32%), Gaps = 4/90 (4%)
Query: 200 RKLSALWKALKKKKEAPPKRGRKRIRPLD--PSE--EEPEFELDLGAGTWQVVCYTEEDW 255
R S A++ A + + R P+E E P L GA
Sbjct: 532 RGTSMSGGAIQGACAAFAAQLKARAAETAGLPAEVVEAPAENLIPGAAEIVGDKNEAALR 591
Query: 256 TKLAEATADAPCKEEKTLHHVLTEDFLPEI 285
LAEA AD P E H T ++
Sbjct: 592 VPLAEAAADGPIAAETAFHDFPTSALDADV 621
>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein. Hsp70 chaperones help to fold
many proteins. Hsp70 assisted folding involves repeated
cycles of substrate binding and release. Hsp70 activity
is ATP dependent. Hsp70 proteins are made up of two
regions: the amino terminus is the ATPase domain and the
carboxyl terminus is the substrate binding region.
Length = 598
Score = 31.0 bits (71), Expect = 0.85
Identities = 29/132 (21%), Positives = 46/132 (34%), Gaps = 33/132 (25%)
Query: 29 FDIEELE------EALLTDGTEDTGSSLLQELIVRLLCGCYGRNHGISIFNYQMFLRRLF 82
FD+ LE E L T+G G +V + + +GI + L+RL
Sbjct: 198 FDVSILEIGDGVFEVLATNGDTHLGGEDFDNRLVDHFVEEFKKKYGIDLSKDPRALQRL- 256
Query: 83 RTKCREYGRE--------N-PFDS----DIDF-------QFLPL------RTKVEILQAL 116
R + E N PF + D +F L RT + +AL
Sbjct: 257 REAAEKAKIELSSNQTEINLPFITAMADGKDVSGTLTRAKFEELCADLFERTLEPVEKAL 316
Query: 117 CDFRLDADDVLD 128
D +L ++ +
Sbjct: 317 KDAKLSKSEIDE 328
>gnl|CDD|239151 cd02750, MopB_Nitrate-R-NarG-like, Respiratory nitrate reductase A
(NarGHI), alpha chain (NarG) and related proteins. Under
anaerobic conditions in the presence of nitrate, E. coli
synthesizes the cytoplasmic membrane-bound
quinol-nitrate oxidoreductase (NarGHI), which reduces
nitrate to nitrite and forms part of a redox loop
generating a proton-motive force. Found in prokaryotes
and some archaea, NarGHI usually functions as a
heterotrimer. The alpha chain contains the molybdenum
cofactor-containing Mo-bisMGD catalytic subunit. Members
of the MopB_Nitrate-R-NarG-like CD belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 461
Score = 30.4 bits (69), Expect = 1.2
Identities = 24/93 (25%), Positives = 33/93 (35%), Gaps = 22/93 (23%)
Query: 58 LLCGCYGRNHGISIFNYQMFLRRLFRTKCREYGRENPFDSD------IDFQFLPLRTKVE 111
L G G+N G +Y R LF R N F S + K++
Sbjct: 315 ALTGNEGKNGGG-WAHYVGQPRVLF------VWRGNLFGSSGKGHEYFEDAPEG---KLD 364
Query: 112 ILQALCDFRLD-----ADDVLDCLKNLESDSLR 139
++ L DFR+D +D VL E L
Sbjct: 365 LIVDL-DFRMDSTALYSDIVLPAATWYEKHDLS 396
>gnl|CDD|150240 pfam09495, DUF2462, Protein of unknown function (DUF2462). This
protein is highly conserved, but its function is
unknown. It can be isolated from HeLa cell nucleoli and
is found to be homologous with Leydig cell tumour
protein whose function is unknown.
Length = 82
Score = 28.1 bits (63), Expect = 1.4
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 195 KKKKKRKLSALWKALKKKKEAPPKRGRKRIRP 226
K K K A KA KKK++ P K G + I+P
Sbjct: 5 ALKVKAKGPAAVKAGKKKQKGPKKAGPRVIKP 36
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 29.2 bits (66), Expect = 1.9
Identities = 25/117 (21%), Positives = 42/117 (35%), Gaps = 26/117 (22%)
Query: 195 KKKKKRKLSALWKALKKKKEAPPKRGRKRIRPLDPSEEEPEFEL--------------DL 240
K K K+ L A + +K K ++G + + P +E E DL
Sbjct: 55 KAKAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDELAEKLRLRKLQEESDLNNAADL 114
Query: 241 GAGTWQVVCY-----------TEEDWTKLAEATADAPCKEEKTLHHV-LTEDFLPEI 285
G T+ED+ +L +A A K E + H+ ED + ++
Sbjct: 115 FGGPAPTKDTDLESLDLFNPKTKEDFEELRKALAKKLTKYESSPHYAGFLEDLIRDL 171
>gnl|CDD|182249 PRK10117, PRK10117, trehalose-6-phosphate synthase; Provisional.
Length = 474
Score = 29.3 bits (66), Expect = 2.7
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 22/95 (23%)
Query: 82 FRTKCREYGREN--------PFDSDIDFQFLPLRTKVEILQALCDFRL-------DADDV 126
F ++ R+ G N PF + F LP E+L+ LCD+ L D
Sbjct: 137 FASELRKRGVNNRIGFFLHIPFPTPEIFNALPPHD--ELLEQLCDYDLLGFQTENDRLAF 194
Query: 127 LDCLKNLESDSLRLQPLGYDRNQSAFWYFYGTRLY 161
LDCL NL R+ ++ +A+ + T +Y
Sbjct: 195 LDCLSNLT----RVTTRS-GKSHTAWGKAFRTEVY 224
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 28.9 bits (64), Expect = 4.2
Identities = 10/51 (19%), Positives = 28/51 (54%)
Query: 190 KTVHTKKKKKRKLSALWKALKKKKEAPPKRGRKRIRPLDPSEEEPEFELDL 240
++ T ++ +RK +A ++++K R R++++ +D E+ E ++
Sbjct: 109 ESKKTPRRTRRKAAAASSDVEEEKTEKKVRKRRKVKKMDEDVEDQGSESEV 159
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 28.7 bits (64), Expect = 5.3
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 195 KKKKKRKLSALWKALKKKKEA--------PPKRGRKRIRPLDPSEEEPEFELD 239
K+K+ +KL A K K K +A PK+ K+ R D +E PE +D
Sbjct: 29 KEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRKRDVEDENPEDFID 81
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 27.5 bits (61), Expect = 6.9
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 193 HTKKKKKRKLSALWKALKKKKEAPPKRGRKRIRPLDP 229
H KK KK+K + KKKKE K+ +KR P P
Sbjct: 140 HEKKHKKKKHEDDKERKKKKKEK--KKKKKRHSPEHP 174
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 27.9 bits (63), Expect = 7.4
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 191 TVHTKKKKKRKLSALWKALKKKKEAPPKRGRKRIRPLD 228
+ KK+ K A K K++ +A + + R+ LD
Sbjct: 59 ALLDKKELKAWHKAQKKKEKQEAKAAKAKSKPRLFVLD 96
>gnl|CDD|219148 pfam06719, AraC_N, AraC-type transcriptional regulator N-terminus.
This family represents the N-terminus of bacterial
ARAC-type transcriptional regulators. In E. coli, these
regulate the L-arabinose operon through sensing the
presence of arabinose, and when the sugar is present,
transmitting this information from the arabinose-binding
domains to the protein's DNA-binding domains. This
family might represent the N-terminal arm of the
protein, which binds to the C-terminal DNA binding
domains to hold them in a state where the protein
prefers to loop and remain non-activating. All family
members contain the pfam00165 domain.
Length = 155
Score = 27.0 bits (61), Expect = 7.5
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 32 EELEEAL-----LTDGTEDT---GSSLLQELIVRLLCGCYG 64
EL +A+ L D D +L+E++ RLL G G
Sbjct: 112 PELLDAVLRLLRLLDDPLDIPVLAPLILREILYRLLTGPQG 152
>gnl|CDD|222977 PHA03089, PHA03089, late transcription factor VLTF-4; Provisional.
Length = 191
Score = 27.1 bits (60), Expect = 8.9
Identities = 16/46 (34%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 190 KTVHTKKKKKRKLSALWKALKKKKEAPPKRGRKRIRPLDPSEEEPE 235
KT KK RK K KKKK+ + L SEE E
Sbjct: 49 KTSKKKKTTPRKKKTT-KKTKKKKKEKEEVPELAAEELSDSEENEE 93
>gnl|CDD|202398 pfam02791, DDT, DDT domain. This domain is approximately 60
residues in length, and is predicted to be a DNA
binding domain. The DDT domain is named after (DNA
binding homeobox and Different Transcription factors).
It is exclusively associated with nuclear domains, and
is thought to be arranged into three alpha helices.
Length = 61
Score = 25.2 bits (56), Expect = 9.8
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 15 HFCSLFRAAFNLLDFDIEELEEALLTDGTEDTGSSLLQELIVRLLC 60
F + F L F +++ EEALL +E+ LL E+ + LL
Sbjct: 12 EFLNTFGEVLGLSPFTLDDFEEALLCTDSEE----LLGEVHIALLK 53
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 0.139 0.434
Gapped
Lambda K H
0.267 0.0631 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,818,668
Number of extensions: 1544111
Number of successful extensions: 1796
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1785
Number of HSP's successfully gapped: 30
Length of query: 297
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 201
Effective length of database: 6,679,618
Effective search space: 1342603218
Effective search space used: 1342603218
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: 59 (26.7 bits)