RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 033325
(122 letters)
>gnl|CDD|213843 TIGR03654, L6_bact, ribosomal protein L6, bacterial type. [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 175
Score = 116 bits (293), Expect = 2e-34
Identities = 45/96 (46%), Positives = 61/96 (63%), Gaps = 2/96 (2%)
Query: 24 FFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHR 83
F + L+IVGVGY RA+ +G+ L L LGY H VE +P + V K + G+DK
Sbjct: 82 FEKKLEIVGVGY--RAQLQGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDKQL 139
Query: 84 VHQFAASVRSCKPPEPFKGKGIMYTDEVIKKKVGKK 119
V Q AA +R+ + PEP+KGKGI Y EV+++K GKK
Sbjct: 140 VGQVAAEIRAFRKPEPYKGKGIRYAGEVVRRKEGKK 175
>gnl|CDD|235495 PRK05498, rplF, 50S ribosomal protein L6; Validated.
Length = 178
Score = 114 bits (288), Expect = 2e-33
Identities = 48/98 (48%), Positives = 63/98 (64%), Gaps = 2/98 (2%)
Query: 24 FFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHR 83
F + L+IVGVGY RA+ +G+ L L LGY H VE +P + V K + G+DK
Sbjct: 83 FEKKLEIVGVGY--RAQVKGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDKQL 140
Query: 84 VHQFAASVRSCKPPEPFKGKGIMYTDEVIKKKVGKKKS 121
V Q AA +RS +PPEP+KGKGI Y EV+++K GKKK
Sbjct: 141 VGQVAAEIRSYRPPEPYKGKGIRYAGEVVRRKEGKKKK 178
>gnl|CDD|177062 CHL00140, rpl6, ribosomal protein L6; Validated.
Length = 178
Score = 100 bits (251), Expect = 5e-28
Identities = 46/96 (47%), Positives = 63/96 (65%), Gaps = 2/96 (2%)
Query: 23 KFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKH 82
F + L++ GVGY RA+ +G+ L L LGY H V++ +PP + V N + G+DK
Sbjct: 82 GFEKKLELQGVGY--RAQVQGKDLILNLGYSHPVKIKIPPGISVEVENNTNITIKGIDKE 139
Query: 83 RVHQFAASVRSCKPPEPFKGKGIMYTDEVIKKKVGK 118
V QFAA +RS +PPEP+KGKGI Y EVI++K GK
Sbjct: 140 LVGQFAAKIRSVRPPEPYKGKGIRYKGEVIRRKAGK 175
>gnl|CDD|223175 COG0097, RplF, Ribosomal protein L6P/L9E [Translation, ribosomal
structure and biogenesis].
Length = 178
Score = 92.6 bits (231), Expect = 6e-25
Identities = 41/92 (44%), Positives = 55/92 (59%), Gaps = 2/92 (2%)
Query: 28 LKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQF 87
L+IVGVGY RA+ G L L LGY H V + +P + V + G+DK V Q
Sbjct: 87 LEIVGVGY--RAQVVGGNLELFLGYSHPVVIEIPEGITVEVPGPTEIVVEGIDKELVGQV 144
Query: 88 AASVRSCKPPEPFKGKGIMYTDEVIKKKVGKK 119
AA++R+ + PEP+KGKGI Y E I++K GK
Sbjct: 145 AANIRAARKPEPYKGKGIRYDGEYIRRKEGKT 176
>gnl|CDD|215872 pfam00347, Ribosomal_L6, Ribosomal protein L6.
Length = 76
Score = 70.7 bits (174), Expect = 2e-17
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 31 VGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAAS 90
+ VG R +G L L LG ++ +PP V V K V+ G+DK +V QFAA
Sbjct: 1 IPVGV--RVSIDGVNLVLVLGPKGELTREIPPGVTVKVEKITVIIVSGIDKEKVGQFAAL 58
Query: 91 VRSCKPPEPFKGKGIMY 107
+ + + P P GKG+ Y
Sbjct: 59 IGTYRAPIPNMGKGVSY 75
>gnl|CDD|165398 PHA03126, PHA03126, dUTPase; Provisional.
Length = 326
Score = 28.8 bits (64), Expect = 0.67
Identities = 15/28 (53%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 32 GVGYKARAEAEGRLLYLKLGYVHDVELT 59
G ++ARAEA GRLL L H VEL+
Sbjct: 17 GNRWRARAEAAGRLLVLINN--HTVELS 42
>gnl|CDD|233185 TIGR00918, 2A060602, The Eukaryotic (Putative) Sterol Transporter
(EST) Family.
Length = 1145
Score = 27.2 bits (60), Expect = 2.7
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 62 PAVRVFCLKNNVVCCCGL 79
PA+R F L+ +V
Sbjct: 526 PALRAFSLQAAIVVVFNF 543
>gnl|CDD|221413 pfam12080, GldM_C, GldM C-terminal domain. This domain is found in
bacteria at the C-terminus of the GldM protein. This
domain is typically between 169 to 182 amino acids in
length. This domain has two completely conserved
residues (Y and N) that may be functionally important.
GldM, is named for the member from Cytophaga johnsonae
(Flavobacterium johnsoniae), which is required for a
type of rapid gliding motility found in certain members
of the Bacteriodetes.
Length = 175
Score = 26.5 bits (59), Expect = 3.4
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 14 KFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLG---YVHDVELTVP 61
+ +T E K R IV G K A A+ L K G + D++ T P
Sbjct: 124 NYEVTGFEVKVPRQPTIVVNGNKFSARAKSALRKAKRGDIVQIKDIKATRP 174
>gnl|CDD|223545 COG0469, PykF, Pyruvate kinase [Carbohydrate transport and
metabolism].
Length = 477
Score = 26.7 bits (60), Expect = 3.8
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 14 KFTLTRMEAKFFRFLKIVGVGYKARAEA--EGRLLYLKLGYVH-DVELTVPPAVRV 66
KFTLT + + V V YK A+ G + L G + V AV
Sbjct: 92 KFTLTTDDKVGEGDEERVSVDYKDLAKDVKPGDRILLDDGKIELRVVEVDGDAVIT 147
>gnl|CDD|220476 pfam09931, DUF2163, Uncharacterized conserved protein (DUF2163).
This domain, found in various hypothetical prokaryotic
proteins, has no known function.
Length = 163
Score = 26.1 bits (58), Expect = 4.1
Identities = 12/61 (19%), Positives = 21/61 (34%), Gaps = 7/61 (11%)
Query: 10 NLCYKFTLTRMEAKFFRF------LKIVGVGYKARAEAEGRLLYLKLG-YVHDVELTVPP 62
L + +TR + F L GV Y+A + + G V + E+
Sbjct: 18 TLARCWRITRRDGVVLGFTDHDRDLVFDGVTYRAASGLTASAISQATGLSVDNTEIEGAL 77
Query: 63 A 63
+
Sbjct: 78 S 78
>gnl|CDD|147972 pfam06099, Phenol_hyd_sub, Phenol hydroxylase subunit. This
family consists of several bacterial phenol hydroxylase
subunit proteins which are part of a multicomponent
phenol hydroxylase. Some bacteria can utilise phenol or
some of its methylated derivatives as their sole source
of carbon and energy. The first step in this process is
the conversion of phenol into catechol. Catechol is
then further metabolised via the meta-cleavage pathway
into TCA cycle intermediates.
Length = 60
Score = 24.5 bits (54), Expect = 6.6
Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 56 VELTVP-PAVRVFCLKNNVV 74
VEL +P PA FC N V
Sbjct: 37 VELVLPEPAFEAFCAANQVT 56
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
0.327 0.143 0.451
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,091,966
Number of extensions: 521176
Number of successful extensions: 467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 13
Length of query: 122
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 38
Effective length of database: 7,211,866
Effective search space: 274050908
Effective search space used: 274050908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.0 bits)