RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780929|ref|YP_003065342.1| hypothetical protein
CLIBASIA_04140 [Candidatus Liberibacter asiaticus str. psy62]
(408 letters)
>gnl|CDD|185327 PRK15429, PRK15429, formate hydrogenlyase transcriptional activator
FhlA; Provisional.
Length = 686
Score = 31.3 bits (71), Expect = 0.46
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 1 MFQNKNFLLGVLRLKKCTRGVFLVITAILLSSFVAIVDVVVDQVTVMQKTAWLQEVLDH 59
M + +LGVL+L +C VF LL V + VD Q+ L+E L
Sbjct: 303 MSGDT--MLGVLKLAQCEEKVFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVD 359
>gnl|CDD|152291 pfam11855, DUF3375, Protein of unknown function (DUF3375). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 479 to 499 amino acids in
length.
Length = 471
Score = 30.0 bits (68), Expect = 1.0
Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 5/70 (7%)
Query: 32 SFVAIVDVVVDQVTVMQKTAWLQEVLDH-VIYRTSPKNLYDLREAGRDNFIRHQIEKALN 90
SF A D ++D + L+ VL P+ LR RD + E+
Sbjct: 238 SFRAFWDFLLDPERQEELDELLRAVLARPPAQGLDPELREFLRRLHRD--LLEAGEEVQR 295
Query: 91 TYN--SRDLS 98
T S L
Sbjct: 296 TRRRLSESLR 305
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 30.0 bits (68), Expect = 1.1
Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 10/51 (19%)
Query: 59 HVIYRTSPKNLYDLREAGRDNFIRHQIEKALNTYNSRDLSNIGSIESIVKD 109
I RT K L L E N H + DL ++ +E+ +
Sbjct: 29 ISISRTENKELTKLAEQYNSNLTFHSL----------DLQDVHELETNFNE 69
>gnl|CDD|129429 TIGR00329, gcp_kae1, metallohydrolase, glycoprotease/Kae1 family.
This subfamily includes the well-studied secreted
O-sialoglycoprotein endopeptidase (glycoprotease, EC
3.4.24.57) of Pasteurella haemolytica, a pathogen. A
member from Riemerella anatipestifer, associated with
cohemolysin activity, likewise is exported without
benefit of a classical signal peptide and shows
glycoprotease activity on the test substrate
glycophorin. However, archaeal members of this subfamily
show unrelated activities as demonstrated in Pyrococcus
abyssi: DNA binding, iron binding, apurinic endonuclease
activity, genomic association with a kinase domain, and
no glycoprotease activity. This family thus pulls
together a set of proteins as a homology group that
appears to be near-universal in life, yet heterogeneous
in assayed function between bacteria and archaea.
Length = 305
Score = 29.2 bits (66), Expect = 1.8
Identities = 24/128 (18%), Positives = 43/128 (33%), Gaps = 24/128 (18%)
Query: 206 LNRNTLVKNFLSQIPYKNFCMAPYHYSSILYWAVGTLTYSVDNKTTTREYYKDPYYATWD 265
L + F +PY M + +S G T ++ + K+ AT +
Sbjct: 183 LAKKGDKLPFYFPLPYTVKPMLDFSFS-------GLKTAAL---RKIEKLKKNLNEATKE 232
Query: 266 HFPYSFIKNVFDMTSNQFGDGQVLTNTNHCFPHGASQNKYMLMLAIGNQLSRSSVEKEKI 325
YSF + FD + T L+L G +S + +E +
Sbjct: 233 DIAYSFQETAFDHLIEK---------TKRAL---KDTGPKELVLVGG--VSANKRLREML 278
Query: 326 EKVLQDCH 333
E + Q+ +
Sbjct: 279 ETLCQELN 286
>gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE;
Provisional.
Length = 225
Score = 29.0 bits (65), Expect = 2.2
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 150 KVDISRRKKVMYKQNIGLMIMPFAWDGYWLASRGKVAD-----SKVHPPKYLEYSHYYQQ 204
VD++ R ++ + L + F L + GKV ++V P +E+SHY +
Sbjct: 135 TVDLAARVIHRGEEEVHLTPIEFRLLAVLLNNAGKVLTQRQLLNQVWGPNAVEHSHYLRI 194
Query: 205 YL 206
Y+
Sbjct: 195 YM 196
>gnl|CDD|129791 TIGR00708, cobA, cob(I)alamin adenosyltransferase. Alternate name:
corrinoid adenosyltransferase.
Length = 173
Score = 27.8 bits (62), Expect = 5.5
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 13/47 (27%)
Query: 39 VVVDQVTVMQKTAWL--QEVLD---------HVIY--RTSPKNLYDL 72
V++D++T K +L +EV++ HVI R P++L +L
Sbjct: 101 VLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLEL 147
>gnl|CDD|149018 pfam07727, RVT_2, Reverse transcriptase (RNA-dependent DNA
polymerase). A reverse transcriptase gene is usually
indicative of a mobile element such as a retrotransposon
or retrovirus. Reverse transcriptases occur in a variety
of mobile elements, including retrotransposons,
retroviruses, group II introns, bacterial msDNAs,
hepadnaviruses, and caulimoviruses. This Pfam entry
includes reverse transcriptases not recognized by the
pfam00078 model.
Length = 246
Score = 27.0 bits (61), Expect = 8.5
Identities = 21/96 (21%), Positives = 33/96 (34%), Gaps = 30/96 (31%)
Query: 29 LLSSFVAIVDVVVDQVTVMQKTAWLQEVLDHVIYRTSP----------------KNLYDL 72
LL + A + Q+ V KTA+L L+ +Y P K+LY L
Sbjct: 67 LLLALAAQRGWELHQMDV--KTAFLNGELEEEVYMKQPPGFEDPGKPNKVCRLKKSLYGL 124
Query: 73 REAGR------------DNFIRHQIEKALNTYNSRD 96
++A R F + + + L S
Sbjct: 125 KQAPRAWYQKLSSFLLKLGFKQSEADPCLFVKKSGG 160
>gnl|CDD|162647 TIGR01993, Pyr-5-nucltdase, pyrimidine 5'-nucleotidase. These
enzymes are members of the haloacid dehalogenase (HAD)
superfamily of hydrolases, specifically the IA subfamily
(variant 3, TIGR01509).
Length = 184
Score = 26.9 bits (60), Expect = 8.6
Identities = 11/53 (20%), Positives = 22/53 (41%), Gaps = 2/53 (3%)
Query: 174 WDGYWLASRGKVADSKVHPPKYLEYSHYYQQY--LNRNTLVKNFLSQIPYKNF 224
+ Y G + ++ +YL Y H Y L + ++N L ++P +
Sbjct: 49 YREYGTTLAGLMILHEIDADEYLRYVHGRLPYEKLKPDPELRNLLLRLPGRKI 101
>gnl|CDD|184793 PRK14696, tynA, tyramine oxidase; Provisional.
Length = 721
Score = 27.1 bits (60), Expect = 8.7
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 152 DISRRKKVMYKQNIGLMIMPF 172
D ++KVMY+ ++G MI+P+
Sbjct: 343 DNGTKRKVMYEGSLGGMIVPY 363
>gnl|CDD|179328 PRK01736, PRK01736, hypothetical protein; Reviewed.
Length = 190
Score = 26.8 bits (60), Expect = 9.2
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 289 LTNTNHCFPHGASQNKYMLMLAIGNQLSRSSVE 321
LTN FPH +Q L A + L+
Sbjct: 52 LTNEGMAFPHALAQPLRQLHQATSDALTDDGFL 84
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.321 0.134 0.402
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,513,114
Number of extensions: 403181
Number of successful extensions: 689
Number of sequences better than 10.0: 1
Number of HSP's gapped: 689
Number of HSP's successfully gapped: 19
Length of query: 408
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 312
Effective length of database: 3,920,105
Effective search space: 1223072760
Effective search space used: 1223072760
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: 58 (26.2 bits)