RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7973
(132 letters)
>gnl|CDD|178528 PLN02940, PLN02940, riboflavin kinase.
Length = 382
Score = 131 bits (331), Expect = 7e-38
Identities = 55/109 (50%), Positives = 74/109 (67%), Gaps = 1/109 (0%)
Query: 22 PYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDPGVYYGWSKLSDGPTVYKMVM 81
P+ G ++KGFGRGSK LGIPTAN+ E + GVY+GW+ LS VYKMVM
Sbjct: 238 PWHIGGPVIKGFGRGSKVLGIPTANLSTENYSDVLSEHPSGVYFGWAGLST-RGVYKMVM 296
Query: 82 SIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
SIGWNP++ N +K++E ++H+FG D Y L + ++GYIRPE +F SL
Sbjct: 297 SIGWNPYFNNTEKTIEPWLLHDFGEDFYGEELRLVIVGYIRPEANFPSL 345
>gnl|CDD|190069 pfam01687, Flavokinase, Riboflavin kinase. This family represents
the C-terminal region of the bifunctional riboflavin
biosynthesis protein known as RibC in Bacillus subtilis.
The RibC protein from Bacillus subtilis has both
flavokinase and flavin adenine dinucleotide synthetase
(FAD-synthetase) activities. RibC plays an essential
role in the flavin metabolism. This domain is thought to
have kinase activity.
Length = 125
Score = 124 bits (313), Expect = 8e-38
Identities = 45/110 (40%), Positives = 62/110 (56%), Gaps = 7/110 (6%)
Query: 21 YPYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDPGVYYGWSKLSDGPTVYKMV 80
PY G +V G GRG LG PTAN+ K LP++ GVY K+ VY V
Sbjct: 4 RPYSISGTVVHGKGRGRT-LGFPTANLSLPKDKLLPKN---GVYAVRVKI--DGKVYPGV 57
Query: 81 MSIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
+IG+NP + KK ++EVHI+ +F DLY + + L ++RPE F+SL
Sbjct: 58 ANIGYNPTFGGKKPTIEVHIL-DFDGDLYGEEIRVEFLKFLRPEKKFDSL 106
>gnl|CDD|214901 smart00904, Flavokinase, Riboflavin kinase. Riboflavin is
converted into catalytically active cofactors (FAD and
FMN) by the actions of riboflavin kinase, which converts
it into FMN, and FAD synthetase, which adenylates FMN to
FAD. Eukaryotes usually have two separate enzymes, while
most prokaryotes have a single bifunctional protein that
can carry out both catalyses, although exceptions occur
in both cases. While eukaryotic monofunctional
riboflavin kinase is orthologous to the bifunctional
prokaryotic enzyme. the monofunctional FAD synthetase
differs from its prokaryotic counterpart, and is instead
related to the PAPS-reductase family. The bacterial FAD
synthetase that is part of the bifunctional enzyme has
remote similarity to nucleotidyl transferases and,
hence, it may be involved in the adenylylation reaction
of FAD synthetases. This entry represents riboflavin
kinase, which occurs as part of a bifunctional enzyme or
a stand-alone enzyme.
Length = 124
Score = 115 bits (290), Expect = 3e-34
Identities = 39/110 (35%), Positives = 55/110 (50%), Gaps = 8/110 (7%)
Query: 21 YPYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDPGVYYGWSKLSDGPTVYKMV 80
PY G +V G RG LG PTAN+ + LP++ GVY ++ Y V
Sbjct: 4 RPYSISGRVVHGDKRGRT-LGFPTANLPLDDRLLLPKN---GVYAVRVRVDGKI--YPGV 57
Query: 81 MSIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
+IG P + +S+EVHI+ G DLY + + L +IR E F+SL
Sbjct: 58 ANIGTRPTF-GGDRSVEVHILDFSG-DLYGEEIEVEFLKFIRDEQKFDSL 105
>gnl|CDD|223274 COG0196, RibF, FAD synthase [Coenzyme metabolism].
Length = 304
Score = 98.1 bits (245), Expect = 9e-26
Identities = 38/110 (34%), Positives = 54/110 (49%), Gaps = 8/110 (7%)
Query: 21 YPYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDPGVYYGWSKLSDGPTVYKMV 80
PY +G +V G G + LG PTAN+ + GVY KL VY V
Sbjct: 184 RPYSIEGKVVHGQKLG-RTLGFPTANIYLKDNVLPAF----GVYAVRVKL--DGGVYPGV 236
Query: 81 MSIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
++G+ P ++S+EVHI+ F DLY + + L +IR E F+SL
Sbjct: 237 ANVGYRPTVDGSERSLEVHILD-FNGDLYGERVKVRFLKFIRDEKKFDSL 285
>gnl|CDD|235536 PRK05627, PRK05627, bifunctional riboflavin kinase/FMN
adenylyltransferase; Reviewed.
Length = 305
Score = 90.6 bits (226), Expect = 5e-23
Identities = 38/112 (33%), Positives = 55/112 (49%), Gaps = 12/112 (10%)
Query: 21 YPYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDP--GVYYGWSKLSDGPTVYK 78
PY G +V G G + LG PTAN+ LP+ P GVY K+ P Y
Sbjct: 184 RPYSISGRVVHGQKLG-RTLGFPTANLP------LPDRVLPADGVYAVRVKVDGKP--YP 234
Query: 79 MVMSIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
V +IG P ++ +EVH++ +F DLY +++ L +R E F+SL
Sbjct: 235 GVANIGTRPTVDGGRQLLEVHLL-DFNGDLYGEHITVEFLKKLRDEQKFDSL 285
>gnl|CDD|232818 TIGR00083, ribF, riboflavin kinase/FMN adenylyltransferase.
multifunctional enzyme: riboflavin kinase (EC 2.7.1.26)
(flavokinase) / FMN adenylyltransferase (EC 2.7.7.2)
(FAD pyrophosphorylase) (FAD synthetase) [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Riboflavin, FMN, and FAD].
Length = 288
Score = 63.6 bits (155), Expect = 5e-13
Identities = 34/109 (31%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 22 PYFTKGIIVKGFGRGSKELGIPTANMCDEAVKSLPESFDPGVYYGWSKLSDGPTVYKMVM 81
PYF G ++ G G LG PTAN+ + G YY L + Y V
Sbjct: 168 PYFICGTVIHGQKLGRT-LGFPTANIKLKNQVLPL----KGGYYVVVVLLN-GEPYPGVG 221
Query: 82 SIGWNPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRPELDFNSL 130
+IG P + ++ +EVH++ +F +LY + + ++ IRPE F+SL
Sbjct: 222 NIGNRPTFIGQQLVIEVHLL-DFSGELYGQEIKVTLVKKIRPEQKFSSL 269
>gnl|CDD|234114 TIGR03121, one_C_dehyd_A, formylmethanofuran dehydrogenase subunit
A. Members of this largely archaeal protein family are
subunit A of the formylmethanofuran dehydrogenase.
Nomenclature in some bacteria may reflect inclusion of
the formyltransferase described by TIGR03119 as part of
the complex, and therefore call this protein
formyltransferase/hydrolase complex Fhc subunit A. Note
that this model does not distinguish tungsten (FwdA)
from molybdenum-containing (FmdA) forms of this enzyme;
a single gene from this family is expressed
constitutively in Methanobacterium thermoautotrophicum,
which has both tungsten and molybdenum forms and may
work interchangeably.
Length = 556
Score = 26.9 bits (60), Expect = 3.4
Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 5 ANIIKQNGVCHQAKDKYPYF--TKGIIVKGFGRGSKELGIP 43
D PYF T I+KG R ++ELG+P
Sbjct: 188 VEAWGWGENVLSLDDPVPYFGITPREIIKGLARANEELGLP 228
>gnl|CDD|238567 cd01147, HemV-2, Metal binding protein HemV-2. These proteins are
predicted to function as initial receptors in ABC
transport of metal ions. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
A typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind the
metal ion in the cleft between these domains. In
addition, these proteins sometimes have a low complexity
region containing a metal-binding histidine-rich motif
(repetitive HDH sequence).
Length = 262
Score = 26.9 bits (60), Expect = 3.6
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 7/48 (14%)
Query: 46 NMCDEAVKSLPESFDPGVYYGWSKL-------SDGPTVYKMVMSIGWN 86
+E K +P+ P VY+G S ++ G
Sbjct: 142 ADVEERTKDIPDEEKPTVYFGRIGTKGAAGLESGLAGSIEVFELAGGI 189
>gnl|CDD|234928 PRK01254, PRK01254, hypothetical protein; Provisional.
Length = 707
Score = 26.6 bits (59), Expect = 4.5
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 9/30 (30%)
Query: 18 KDKYPYFTKGIIVKGFGRGSKELGIPTANM 47
+DK P FT G+I +LG PTANM
Sbjct: 415 RDKVPGFT-GVI--------SDLGGPTANM 435
>gnl|CDD|217021 pfam02410, Oligomerisation, Oligomerisation domain. In yeasts,
this domain is required for the oligomerisation of ATP
synthase subunit 9 into a ring structure.
Length = 99
Score = 25.5 bits (57), Expect = 5.0
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 98 VHIIHEFGRDLYDL 111
VHI R+ YDL
Sbjct: 82 VHIFTPEAREFYDL 95
>gnl|CDD|233736 TIGR02122, TRAP_TAXI, TRAP transporter solute receptor, TAXI
family. This family is one of at least three major
families of extracytoplasmic solute receptor (ESR) for
TRAP (Tripartite ATP-independent Periplasmic
Transporter) transporters. The others are the DctP
(TIGR00787) and SmoM (pfam03480) families. These
transporters are secondary (driven by an ion gradient)
but composed of three polypeptides, although in some
species the 4-TM and 12-TM integral membrane proteins
are fused. Substrates for this transporter family are
not fully characterized but, besides C4 dicarboxylates,
may include mannitol and other compounds [Transport and
binding proteins, Unknown substrate].
Length = 320
Score = 26.1 bits (58), Expect = 6.1
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 16 QAKDKYPYFTKGIIVKGFGRGSKELGIPTAN 46
+ ++KYP++ KG+I G G E +PT
Sbjct: 226 KLREKYPFYRKGVIPAGTYPGQDE-DVPTLA 255
>gnl|CDD|221535 pfam12333, Ipi1_N, Rix1 complex component involved in 60S ribosome
maturation. This domain family is found in eukaryotes,
and is typically between 91 and 105 amino acids in
length. This family is the N terminal of Ipi1, a
component of the Rix1 complex which works in conjunction
with Rea1 to mature the 60S ribosome.
Length = 86
Score = 25.2 bits (56), Expect = 6.1
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 10/58 (17%)
Query: 49 DEAVKSLPESFDPGVYYGWSKLSDGPTVYKMVMSIGWNPFYKNKKKSMEVHI--IHEF 104
D ++ P+ G W K+ + +GWN K KK+ + + +F
Sbjct: 36 DLLLEYAPDLVVSG---YWVKILNN-----FFDLLGWNRNGKTSKKARIKVLQALAQF 85
>gnl|CDD|223058 PHA03366, PHA03366, FGAM-synthase; Provisional.
Length = 1304
Score = 25.8 bits (57), Expect = 9.1
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 86 NPFYKNKKKSMEVHIIHEFGRDLYDLTLSICVLGYIRP 123
P Y + +E + I + + Y L C+ G RP
Sbjct: 392 TPPYLYRDSGLEANKILQALKLFYSLLPGPCISGSSRP 429
>gnl|CDD|224344 COG1427, COG1427, Predicted periplasmic solute-binding protein
[General function prediction only].
Length = 252
Score = 25.4 bits (56), Expect = 9.8
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 7/55 (12%)
Query: 49 DEAVKSLPESFDPGVYY-----GWSKLSDGPTVYKMVMSIGWNPFYKNKKKSMEV 98
DEA++++ PG W +L+ P V+ ++ S PFYK E
Sbjct: 139 DEALRAVYS--LPGKLIYDLGELWYELTGLPFVFAVLASRKDKPFYKRALLEFEE 191
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
0.319 0.139 0.432
Gapped
Lambda K H
0.267 0.0872 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,679,085
Number of extensions: 568654
Number of successful extensions: 399
Number of sequences better than 10.0: 1
Number of HSP's gapped: 380
Number of HSP's successfully gapped: 22
Length of query: 132
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 46
Effective length of database: 7,123,158
Effective search space: 327665268
Effective search space used: 327665268
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 (21.7 bits)
S2: 53 (23.9 bits)