RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1160
(121 letters)
>gnl|CDD|191068 pfam04716, ETC_C1_NDUFA5, ETC complex I subunit conserved region.
Family of eukaryotic NADH-ubiquinone oxidoreductase
subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of
the electron transport chain initially identified in
Neurospora crassa as a 29.9 kDa protein. The conserved
region is found at the N-terminus of the member
proteins.
Length = 57
Score = 63.8 bits (156), Expect = 4e-15
Identities = 21/55 (38%), Positives = 40/55 (72%)
Query: 16 PDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKI 70
P+P+ +L LY K L+ L K+P+D+ Y+KYT+ + R+K+V++ + ++++E KI
Sbjct: 1 PNPRAALIALYTKTLKKLKKIPEDSVYRKYTEALTKHRLKIVEEEEDVEKIEKKI 55
>gnl|CDD|119359 cd06542, GH18_EndoS-like, Endo-beta-N-acetylglucosaminidases are
bacterial chitinases that hydrolyze the chitin core of
various asparagine (N)-linked glycans and
glycoproteins. The endo-beta-N-acetylglucosaminidases
have a glycosyl hydrolase family 18 (GH18) catalytic
domain. Some members also have an additional
C-terminal glycosyl hydrolase family 20 (GH20) domain
while others have an N-terminal domain of unknown
function (pfam08522). Members of this family include
endo-beta-N-acetylglucosaminidase S (EndoS) from
Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and
EndoH from Flavobacterium meningosepticum, and EndoE
from Enterococcus faecalis. EndoS is a secreted
endoglycosidase from Streptococcus pyogenes that
specifically hydrolyzes the glycan on human IgG between
two core N-acetylglucosamine residues. EndoE is a
secreted endoglycosidase, encoded by the ndoE gene in
Enterococcus faecalis, that hydrolyzes the glycan on
human RNase B.
Length = 255
Score = 30.0 bits (68), Expect = 0.24
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 22 LTVLYNKILRLLAKMPDDAAYKKYTKEIVDT 52
L++L N + A DAA K Y K IVDT
Sbjct: 69 LSILGNHLGAGFANNLSDAAAKAYAKAIVDT 99
>gnl|CDD|234190 TIGR03376, glycerol3P_DH, glycerol-3-phosphate dehydrogenase
(NAD(+)). Members of this protein family are the
eukaryotic enzyme, glycerol-3-phosphate dehydrogenase
(NAD(+)) (EC 1.1.1.8). Enzymatic activity for 1.1.1.8 is
defined as sn-glycerol 3-phosphate + NAD(+) = glycerone
phosphate + NADH. Note the very similar reactions of
enzymes defined as EC 1.1.1.94 and 1.1.99.5, assigned to
families of proteins in the bacteria.
Length = 342
Score = 27.3 bits (61), Expect = 2.1
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 55 KVVQQAKSIDEMETKIKSGQIEEVIIQAE--NELLLARKMLNWKPWEPLLKT 104
+ KS++E+E ++ +GQ + + A+ +ELL + N PL +
Sbjct: 276 AFAKTGKSLEELEKELLNGQSLQGVATAKEVHELLKNK---NKDDEFPLFEA 324
>gnl|CDD|222689 pfam14335, DUF4391, Domain of unknown function (DUF4391). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 220 and
257 amino acids in length.
Length = 221
Score = 26.8 bits (60), Expect = 2.3
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 9 LTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMET 68
L L++S +L LY I+ + K+ + Y KE + R++ ++Q I+E+E
Sbjct: 133 LDSLSLSLFSGLNLDALYESIVNQIIKLNASSNTGVYEKEDLKERVERLEQ---IEELEK 189
Query: 69 KIKSGQIEEVIIQAENELLLARKM 92
+I ++ + + E RK+
Sbjct: 190 -----EIAKLKKKLKKEKQFNRKV 208
>gnl|CDD|225103 COG2192, COG2192, Predicted carbamoyl transferase, NodU family
[Posttranslational modification, protein turnover,
chaperones].
Length = 555
Score = 27.3 bits (61), Expect = 2.5
Identities = 15/77 (19%), Positives = 23/77 (29%), Gaps = 11/77 (14%)
Query: 7 TGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYK----------KYTKEIVDTRIKV 56
LT +A S SL + Y LL P+ K Y ++D +
Sbjct: 160 GQLTPIAQSRGI-DSLGLFYAAFTELLGFKPNSDEGKVMGLAAYGDPNYDLSLLDLLREK 218
Query: 57 VQQAKSIDEMETKIKSG 73
I+ K +
Sbjct: 219 EDGLFVINGELLKRLAR 235
>gnl|CDD|238278 cd00498, Hsp33, Heat shock protein 33 (Hsp33): Cytosolic protein
that acts as a molecular chaperone under oxidative
conditions. In normal (reducing) cytosolic conditions,
four conserved Cys residues are coordinated by a Zn ion.
Under oxidative stress (such as heat shock), the Cys
are reversibly oxidized to disulfide bonds, which causes
the chaperone activity to be turned on. Hsp33 is
homodimeric in its functional form.
Length = 275
Score = 26.8 bits (60), Expect = 2.6
Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 17/78 (21%)
Query: 1 MTSEQTTGLTGLAVSPDPKHSLTVLYNKILR----LLAKMPDDAAYKKYTKEIVDTRIKV 56
SEQ GL V +P + + LL +P +E +D KV
Sbjct: 144 AQSEQLPSAVGLGVLVNPDGT-------VKAAGGLLLQVLPGA------DEEDIDAWEKV 190
Query: 57 VQQAKSIDEMETKIKSGQ 74
++ ++ +E S +
Sbjct: 191 IKLMPTVSALELLGLSPE 208
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 26.9 bits (60), Expect = 3.2
Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 13/97 (13%)
Query: 21 SLTVLYNKILRLLAKMPDDAAYKKYTKEIVDT--------RIKVVQQAKSIDEMETKIKS 72
SL VL + RL +D K+Y +I D RIK + +++ +
Sbjct: 411 SLDVLEKRT-RLC----NDETKKEYLPKIYDPFLNGPYRGRIKKLLSPSILNDDSLTLIK 465
Query: 73 GQIEEVIIQAENELLLARKMLNWKPWEPLLKTSPPQQ 109
I+ I + +LL N++ + ++ T P Q
Sbjct: 466 NLIDTFWINKIHNILLKWISTNYQEFFNIITTDPNDQ 502
>gnl|CDD|237363 PRK13357, PRK13357, branched-chain amino acid aminotransferase;
Provisional.
Length = 356
Score = 26.6 bits (60), Expect = 3.4
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 54 IKVVQQAKSIDEMETKIKSGQIEEV 78
+ V ++ SIDE + SG+ E
Sbjct: 273 LTVEERPVSIDEWQADAASGEFTEA 297
>gnl|CDD|218455 pfam05133, Phage_prot_Gp6, Phage portal protein, SPP1 Gp6-like.
This protein forms a hole, or portal, that enables DNA
passage during packaging and ejection. It also forms the
junction between the phage head (capsid) and the tail
proteins. During SPP1 morphogenesis, Gp6 participates in
the procapsid assembly reaction. This family also
includes the old Pfam family Phage_min_cap (PF05126).
Length = 435
Score = 26.2 bits (58), Expect = 5.2
Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 1/55 (1%)
Query: 1 MTSEQTTGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIK 55
L G D + K++RLL DD K TK+ ++
Sbjct: 239 DFPRAILVLKGYGEDDDEF-VKDLKDAKLIRLLDGAEDDGDAKFLTKQFPVASLE 292
>gnl|CDD|215108 PLN00222, PLN00222, tubulin gamma chain; Provisional.
Length = 454
Score = 26.0 bits (57), Expect = 7.2
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 8/62 (12%)
Query: 51 DTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLARKMLNWKPWEP------LLKT 104
R K QAK I + I G+++ + + + RK+ N+ W P L +
Sbjct: 308 YARTKEASQAKYISIL--NIIQGEVDPTQVHKSLQRIRERKLANFIEWGPASIQVALSRK 365
Query: 105 SP 106
SP
Sbjct: 366 SP 367
>gnl|CDD|236871 PRK11175, PRK11175, universal stress protein UspE; Provisional.
Length = 305
Score = 25.6 bits (57), Expect = 7.3
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 52 TRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENEL 86
+K ++Q IDE +T ++ G EEVI L
Sbjct: 226 LAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHL 260
>gnl|CDD|233392 TIGR01391, dnaG, DNA primase, catalytic core. Members of this
family are DNA primase, a ubiquitous bacteria protein.
Most members of this family contain nearly two hundred
additional residues C-terminal to the region represented
here, but conservation between species is poor and the
C-terminal region was not included in the seed
alignment. This protein contains a CHC2 zinc finger
(pfam01807) and a Toprim domain (pfam01751) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 415
Score = 25.6 bits (57), Expect = 7.7
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 15 SPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDT 52
+P+ K L ++L L+ K+PD Y +++
Sbjct: 380 TPEEKAKL---VEELLPLIKKIPDPILRDYYLQKLAQL 414
>gnl|CDD|215250 PLN02456, PLN02456, citrate synthase.
Length = 455
Score = 25.8 bits (57), Expect = 8.1
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 10/47 (21%)
Query: 6 TTGLTGLAV-SPDPKHSL---------TVLYNKILRLLAKMPDDAAY 42
+G+ L+ SPD L V I+RL+ K+P AA
Sbjct: 157 VSGVMALSTFSPDANAYLRGQHKYKSWEVRDEDIVRLIGKLPTLAAA 203
>gnl|CDD|223430 COG0353, RecR, Recombinational DNA repair protein (RecF pathway)
[DNA replication, recombination, and repair].
Length = 198
Score = 25.2 bits (56), Expect = 8.4
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 63 IDEMETKIKSGQIEEVII 80
IDE+ ++ G I+EVI+
Sbjct: 124 IDELLQRLAEGSIKEVIL 141
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
0.313 0.129 0.380
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,145,147
Number of extensions: 534033
Number of successful extensions: 508
Number of sequences better than 10.0: 1
Number of HSP's gapped: 508
Number of HSP's successfully gapped: 52
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.0 bits)