RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6286
(159 letters)
>gnl|CDD|219729 pfam08148, DSHCT, DSHCT (NUC185) domain. This C terminal domain is
found in DOB1/SK12/helY-like DEAD box helicases.
Length = 178
Score = 121 bits (305), Expect = 1e-35
Identities = 63/171 (36%), Positives = 91/171 (53%), Gaps = 46/171 (26%)
Query: 24 EADVIEMKGRVACELSKSEETVILT----------------------------------- 48
+ V+ +KGRVACE+S SE+ ++LT
Sbjct: 3 DDGVVTLKGRVACEIS-SEDELLLTELLFSGFFNDLDPEELAALLSAFVFEERRDDEGYP 61
Query: 49 --------INDKLELARHIARISIESKLDLDEDSYVNQFKPSLMDVVHAWCEGASFLKVC 100
+N LE+AR +A++ E LD E YV +F LM+VV+ W GASF ++C
Sbjct: 62 PSLELAEALNRLLEIARKLAKVEREHGLDEPE--YVERFDFGLMEVVYEWARGASFSEIC 119
Query: 101 SITDIFEGSIIRCMRRLEEVLRQLVQASRNIGNTLLEEKFNEAIKTVKRDI 151
TD+FEG I+R +RRL+E+LRQL A++ IG+ L EK EAI+ ++RDI
Sbjct: 120 EETDLFEGDIVRVIRRLDELLRQLANAAKIIGDPELAEKAEEAIELIRRDI 170
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 106 bits (266), Expect = 2e-27
Identities = 61/196 (31%), Positives = 95/196 (48%), Gaps = 47/196 (23%)
Query: 2 SLLHMEELKCRKRVLRRLGYATEADVIEMKGRVACELS-------------------KSE 42
+L +++ K + VL++LG+ + V+ +KGRVA E+S + E
Sbjct: 841 ALSFLDDYKTLQEVLKKLGFIEDNAVVLIKGRVAAEISSEDELLLTELIFSGEFNDLEPE 900
Query: 43 ETVIL----TINDK----------------------LELARHIARISIESKLDLDEDSYV 76
E L +K LELAR + + S++++ + +
Sbjct: 901 ELAALLSAFVFEEKTDDGTAEAPEITPALRDALLRLLELARKLNKDQNSSQIEIYPE--L 958
Query: 77 NQFKPSLMDVVHAWCEGASFLKVCSITDIFEGSIIRCMRRLEEVLRQLVQASRNIGNTLL 136
N F LM+VV+ W G SF +C +T + EGS +R RRL E+LRQL +A+ IGN L
Sbjct: 959 NDFSVGLMEVVYEWARGLSFADICGLTSLLEGSFVRIFRRLRELLRQLRKAASVIGNPEL 1018
Query: 137 EEKFNEAIKTVKRDIF 152
EEK AI+ ++RDI
Sbjct: 1019 EEKAYRAIQEIRRDIV 1034
>gnl|CDD|184969 PRK15007, PRK15007, putative ABC transporter arginine-biding
protein; Provisional.
Length = 243
Score = 29.6 bits (66), Expect = 0.65
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 132 GNTLLEEKFNEAIKTVKRD 150
GNT L++K N A++ VK+D
Sbjct: 212 GNTELQQKLNTALEKVKKD 230
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 28.6 bits (65), Expect = 1.4
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 115 RRLEEVLRQLVQASRNIGNTLLEEKFNEAIKTVKRDIFLEILENL 159
LEE L+++++ R LE + E ++ + R++ L + L
Sbjct: 185 DELEEELQEILRQLRE-----LEREAREKLRELDREVALFAVGPL 224
>gnl|CDD|217862 pfam04051, TRAPP, Transport protein particle (TRAPP) component.
TRAPP plays a key role in the targeting and/or fusion of
ER-to-Golgi transport vesicles with their acceptor
compartment. TRAPP is a large multimeric protein that
contains at least 10 subunits. This family contains many
TRAPP family proteins. The Bet3 subunit is one of the
better characterized TRAPP proteins and has a dimeric
structure with hydrophobic channels. The channel
entrances are located on a putative membrane-interacting
surface that is distinctively flat, wide and decorated
with positively charged residues. Bet3 is proposed to
localise TRAPP to the Golgi.
Length = 148
Score = 26.8 bits (60), Expect = 3.6
Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 108 GSIIR-CMRRLEEVLRQLVQASRNIGNTLLEE-----------KFNEAIKTVKRDIF 152
G ++ +R +E+V +L + NIG L+E E +K + +D++
Sbjct: 7 GELVSYLLRDVEDVNARLEKMGYNIGQRLIERLLARSGSKRCTDLLEVLKFICKDLW 63
>gnl|CDD|225983 COG3452, COG3452, Predicted periplasmic ligand-binding sensor
domain [Signal transduction mechanisms].
Length = 297
Score = 27.1 bits (60), Expect = 3.8
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 115 RRLEEVLRQLVQASRNIGNTLLEEKFNEAIKTVKR 149
R +E LRQLV+ NI T LE + N I+ VK
Sbjct: 41 RVSQERLRQLVKQQLNIIRTQLETQLNGNIQLVKG 75
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 27.7 bits (61), Expect = 4.1
Identities = 19/105 (18%), Positives = 34/105 (32%), Gaps = 19/105 (18%)
Query: 3 LLHMEELKCRKRVLRRLGYATEA----DVIEMKGRVACELSKSEETVILTINDK------ 52
L E K +K ++RL + D I M+ K E + L I++
Sbjct: 3161 LYRGEFRKGKKLNMKRLVPYIASIFRRDFIWMRKFTQRNNDKKESVLRLFIDNSTSGEFQ 3220
Query: 53 ------LELARHIARISIESKLD---LDEDSYVNQFKPSLMDVVH 88
L HI R + + + QF + +++
Sbjct: 3221 EMLDTLLSFYSHINRSFSLLGIPVELYNFGEVLEQFPSKVEEMIF 3265
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional.
Length = 436
Score = 27.1 bits (60), Expect = 4.1
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 70 LDEDSYVNQFKPSLMDVVHAWCEGASFLK 98
+D+DS+V+ FKP + V + GA L+
Sbjct: 229 IDDDSFVDLFKPVISKCVEVYRPGAIVLQ 257
>gnl|CDD|200248 TIGR03152, cyto_c552_HCOOH, formate-dependent cytochrome c nitrite
reductase, c552 subunit. Members of this protein family
are cytochrome c552, a component of cytochrome c nitrite
reductase, which is known more formally as nitrite
reductase (cytochrome; ammonia-forming) (EC 1.7.2.2).
Nitrate can be reduced by several enzymes. EC 1.7.2.2
reduces nitrite all the way to ammonia, rather than to
ammonium hydroxide (nitrite reductase (NAD(P)H), EC
1.7.1.4) or nitric oxide (nitrite reductase
(NO-forming), EC 1.7.2.1). Some examples of EC 1.7.2.2
occur in a seven gene system that enables
formate-dependent nitrite reduction, but is also found
in simpler contexts. Members of this protein family,
however, belong to the formate-dependent system [Energy
metabolism, Electron transport].
Length = 439
Score = 27.1 bits (60), Expect = 4.9
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 52 KLELARHIARISIESKLDLDEDSYVNQFKPSLMDVVHA-W 90
KL L I + E+K D + + KP LMD+ HA W
Sbjct: 303 KLRLEDQIVKAHFEAKAAWDAGATEEEMKPILMDIRHAQW 342
>gnl|CDD|224615 COG1701, COG1701, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 256
Score = 26.2 bits (58), Expect = 8.9
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 7/59 (11%)
Query: 101 SITDIFEGSIIRCMRRLEEVLRQLVQASRNIGNTLLEEKFNEAIKTVKRDIFLEILENL 159
+I D +I+R + L E ++++ ASR L E N K V + I E L
Sbjct: 195 TIVD----NIVRAVPNLIEFVKEMKNASR---EELEEIVENYDNKEVLAEALKHIAERL 246
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 0.379
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,076,085
Number of extensions: 741694
Number of successful extensions: 897
Number of sequences better than 10.0: 1
Number of HSP's gapped: 896
Number of HSP's successfully gapped: 37
Length of query: 159
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 70
Effective length of database: 6,990,096
Effective search space: 489306720
Effective search space used: 489306720
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: 55 (24.9 bits)