RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14755
(184 letters)
>gnl|CDD|145208 pfam01916, DS, Deoxyhypusine synthase. Eukaryotic initiation
factor 5A (eIF-5A) contains an unusual amino acid,
hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The
first step in the post-translational formation of
hypusine is catalyzed by the enzyme deoxyhypusine
synthase (DS) EC:1.1.1.249. The modified version of
eIF-5A, and DS, are required for eukaryotic cell
proliferation.
Length = 297
Score = 125 bits (315), Expect = 2e-35
Identities = 56/117 (47%), Positives = 67/117 (57%), Gaps = 28/117 (23%)
Query: 27 VPNDNYCAFENWLMPILDTMLREQKETNSFGIHAGEWLSGQETTIPQHKQTDKLKGTVWT 86
VPN+NY AFE WLMPI + ML EQ++ G +WT
Sbjct: 112 VPNENYEAFEEWLMPIFEKMLEEQEKE----------------------------GKIWT 143
Query: 87 PSRIISRLGTEINHEDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFRNPGLICDI 143
PS I LG EIN E S+ YWA N+IPIF PALTDGSLGDM+YF++ +NP L DI
Sbjct: 144 PSEFIHELGKEINDERSVLYWAHKNNIPIFCPALTDGSLGDMLYFYTKKNPKLRIDI 200
>gnl|CDD|224811 COG1899, DYS1, Deoxyhypusine synthase [Posttranslational
modification, protein turnover, chaperones].
Length = 318
Score = 88.8 bits (221), Expect = 1e-21
Identities = 39/121 (32%), Positives = 53/121 (43%), Gaps = 34/121 (28%)
Query: 26 IVPNDNYCAFENWLMPILDTMLREQKETNSFGIHAGEWLSGQETTIPQHKQTDKLKGTVW 85
VPN+ Y FE ++ IL+ +L +KE W
Sbjct: 129 FVPNEEYEVFEEFIREILEKLLGIKKE--------------------------------W 156
Query: 86 TPSRIISRLGTEINH-EDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFR-NPGLICDI 143
+ I LG +N E SI Y AA N +PIF PA+TD S+GDM++FH L DI
Sbjct: 157 STREFIYELGKRLNDDESSILYTAAKNGVPIFCPAITDSSIGDMLWFHREEQGSDLKIDI 216
Query: 144 L 144
+
Sbjct: 217 V 217
>gnl|CDD|232918 TIGR00321, dhys, deoxyhypusine synthase. Deoxyhypusine synthase is
responsible for the first step in creating hypusine.
Hypusine is a modified amino acid found in eukaryotes
and in archaea in their respective forms of initiation
factor 5A. Its presence is confirmed in archaeal genera
Pyrococcus (PMID:12761201), Sulfolobus, Halobacterium,
and Haloferax (PMID:10648545), but in an older report
was not detected in Methanococcus voltae (J Biol Chem
1987 Dec 5;262(34):16585-9). This family of apparent
orthologs has an unusual UPGMA difference tree, in which
the members from the archaea M. jannaschii and P.
horikoshii cluster with the known eukaryotic
deoxyhypusine synthases. Separated by a fairly deep
branch, although still strongly related, is a small
cluster of proteins from Methanobacterium
thermoautotrophicum and Archeoglobus fulgidus, the
latter of which has two [Protein fate, Protein
modification and repair].
Length = 301
Score = 85.5 bits (212), Expect = 2e-20
Identities = 41/131 (31%), Positives = 56/131 (42%), Gaps = 36/131 (27%)
Query: 27 VPNDNYCAFENWLMPILDTMLREQKETNSFGIHAGEWLSGQETTIPQHKQTDKLKGTVWT 86
VPN+N+ FE WL+ I ML EQ + T
Sbjct: 120 VPNENFEVFEEWLVEIFSEMLGEQP--------------------------------IIT 147
Query: 87 PSRIISRLGTEIN-HEDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFRNP---GLICD 142
PS I +G IN SI Y A IPIF PALTD S+G M++F++ +N ++ D
Sbjct: 148 PSEFIDEIGKRINDKRSSIRYAAYKRKIPIFCPALTDSSIGLMLFFYTKKNSLRIDIVRD 207
Query: 143 ILQGTSMSFIH 153
I + + F
Sbjct: 208 IRKLNDIVFNS 218
>gnl|CDD|179688 PRK03971, PRK03971, putative deoxyhypusine synthase; Provisional.
Length = 334
Score = 81.3 bits (201), Expect = 1e-18
Identities = 41/128 (32%), Positives = 55/128 (42%), Gaps = 40/128 (31%)
Query: 27 VPNDNYCAFENWLMPILDTMLREQKETNSFGIHAGEWLSGQETTIPQHKQTDKLKGTVWT 86
VPND Y FE ++ + +L +Q+E + T
Sbjct: 141 VPNDRYIEFEEYMYEFFEELLAKQREEGK----------------------------IIT 172
Query: 87 PSRIISRLGTEIN------HEDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFRNPG-- 138
S LG ++ E SI YWA N+IPIF PA+TDGS+GDM+YF F+ G
Sbjct: 173 ASEFCYELGRFMDEKLGKEKEKSILYWAYKNNIPIFCPAITDGSIGDMLYF--FKKEGKD 230
Query: 139 --LICDIL 144
L DI
Sbjct: 231 SELGIDIA 238
>gnl|CDD|234922 PRK01221, PRK01221, putative deoxyhypusine synthase; Provisional.
Length = 312
Score = 58.8 bits (143), Expect = 1e-10
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 74 HKQTDKLKGTV--WTPSRIISRLGTEINHEDSICYWAAHNHIPIFSPALTDGSLGDMMYF 131
K ++L W+ ++ G IN E+SI A +P+F P + DG+ G ++
Sbjct: 144 RKFLEELYKDKKEWSTYELLWEFGKRINDENSILRAAYEKGVPVFVPGIVDGAFGTQLFT 203
Query: 132 HSFRNPGLICDILQ 145
S R G ++L+
Sbjct: 204 FSQRFGGFKINLLE 217
>gnl|CDD|234841 PRK00805, PRK00805, putative deoxyhypusine synthase; Provisional.
Length = 329
Score = 35.0 bits (81), Expect = 0.013
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 94 LGTEINH--EDSICYWAAHNHIPIFSPALTDGSLG 126
LG +N DSI A ++PIF PAL D S+G
Sbjct: 156 LGKWLNEKDIDSIVAAAYRANVPIFVPALCDSSIG 190
>gnl|CDD|235043 PRK02492, PRK02492, deoxyhypusine synthase-like protein;
Provisional.
Length = 347
Score = 34.2 bits (79), Expect = 0.023
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 101 EDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFRNP 137
E+S+ A +PIF PA +D S G + H +NP
Sbjct: 179 ENSLVQKAYEKGVPIFCPAFSDSSAGFGLVHHQVKNP 215
>gnl|CDD|235027 PRK02301, PRK02301, putative deoxyhypusine synthase; Provisional.
Length = 316
Score = 31.9 bits (73), Expect = 0.16
Identities = 9/39 (23%), Positives = 21/39 (53%)
Query: 88 SRIISRLGTEINHEDSICYWAAHNHIPIFSPALTDGSLG 126
+++ +G +++ + I A +P++ PA+ D LG
Sbjct: 161 RDLLTEIGRDLDDDSGILAAAYECDVPVYCPAIQDSVLG 199
>gnl|CDD|130155 TIGR01083, nth, endonuclease III. This equivalog model identifes
nth members of the pfam00730 superfamily (HhH-GPD:
Helix-hairpin-helix and Gly/Pro rich loop followed by a
conserved aspartate). The major members of the
superfamily are nth and mutY [DNA metabolism, DNA
replication, recombination, and repair].
Length = 191
Score = 28.1 bits (63), Expect = 2.4
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 9 ISPKKTLPIIVEIEVSKIVPNDNYCAFENWL 39
+S K P VE E+ K++P + + +WL
Sbjct: 147 LSKGKD-PDKVEEELLKLIPREFWTKLHHWL 176
>gnl|CDD|240665 cd12189, LKR_SDH_like, bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme. Bifunctional lysine
ketoglutarate reductase /saccharopine dehydrogenase
protein is a pair of enzymes linked on a single
polypeptide chain that catalyze the initial, consecutive
steps of lysine degradation. These proteins are related
to the 2-domain saccharopine dehydrogenases. Along with
formate dehydrogenase and similar enzymes, SDH consists
paired domains resembling Rossmann folds in which the
NAD-binding domain is inserted within the linear
sequence of the catalytic domain. In this bifunctional
enzyme, the LKR domain is N-terminal of the SDH domain.
These proteins have a close match to the active site
motif of SDHs, and an NAD-binding site motif that is a
partial match to that found in SDH and other FDH-related
proteins.
Length = 433
Score = 27.5 bits (62), Expect = 4.9
Identities = 16/64 (25%), Positives = 23/64 (35%), Gaps = 24/64 (37%)
Query: 20 EIEVSKIVPNDNYCAF--------ENWLMPILDTMLR--------------EQKETNSFG 57
E + K++P+ Y F N MP+LD +L K +FG
Sbjct: 71 EPPIDKLLPDKTYAFFSHTIKAQPYN--MPLLDAILEKNIRLIDYELIVDESGKRLVAFG 128
Query: 58 IHAG 61
AG
Sbjct: 129 WFAG 132
>gnl|CDD|233714 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine
methyltransferase. This family represents
5-methyltetrahydrofolate--homocysteine methyltransferase
(EC 2.1.1.13), one of at least three different enzymes
able to convert homocysteine to methionine by
transferring a methyl group on to the sulfur atom. It is
also called the vitamin B12(or cobalamine)-dependent
methionine synthase. Other methionine synthases include
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase (MetE, EC 2.1.1.14, the
cobalamin-independent methionine synthase) and
betaine-homocysteine methyltransferase [Amino acid
biosynthesis, Aspartate family].
Length = 1178
Score = 27.4 bits (61), Expect = 5.3
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 159 MVPYPKINKTFHDLNSDVI-LSGL 181
MVP KI + D N+DVI LSGL
Sbjct: 769 MVPIEKILEAAKDHNADVIGLSGL 792
>gnl|CDD|131524 TIGR02471, sucr_syn_bact_C, sucrose phosphate synthase, sucrose
phosphatase-like domain, bacterial. Sucrose phosphate
synthase (SPS) and sucrose phosphate phosphatase (SPP)
are the last two enzymes of sucrose biosynthesis. In
cyanobacteria and plants, the C-terminal region of most
or all versions of SPS has a domain homologous to the
known SPP. This domain may serve a binding or regulatory
rather than catalytic function. Sequences in this family
are bacterial C-terminal regions found in all but two of
the putative bacterial sucrose phosphate synthases
described by TIGR02472.
Length = 236
Score = 26.3 bits (58), Expect = 9.3
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 12/70 (17%)
Query: 47 LREQKETNSFGIHAGEWLSGQETTIPQHKQTDKLKGTVWTPSRIISRLGTEINHEDSIC- 105
LR + FGI G + ++ + + +P +I+R+GTEI + +
Sbjct: 24 LRGSGDAVGFGIATGRSVESAKSRYAKLN--------LPSPDVLIARVGTEIYYGPELQP 75
Query: 106 --YWAAH-NH 112
+W H +H
Sbjct: 76 DRFWQKHIDH 85
>gnl|CDD|178407 PLN02811, PLN02811, hydrolase.
Length = 220
Score = 26.3 bits (58), Expect = 9.5
Identities = 9/26 (34%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 156 PMTMVPYPKINKTFHDLNSDVILSGL 181
+ MVP P+++K++ +D +LS L
Sbjct: 179 SVVMVPDPRLDKSYCK-GADQVLSSL 203
>gnl|CDD|163212 TIGR03307, PhnP, phosphonate metabolism protein PhnP. This family
of proteins found in operons encoding phosphonate C-P
lyase systems as is observed in E. coli and is a member
of the metallo-beta-lactamase superfamily (pfam00753).
As defined by this model, all instances of this protein
are associated with the C-P lyase, but not all genomes
containing the C-P lyase system contain phnP.
Length = 238
Score = 26.2 bits (58), Expect = 9.7
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 15/61 (24%)
Query: 107 WAAHNHIPIFSPALTDGSLGDMMYFHSFRNPGLICDILQGTSMSF-------IHITPMTM 159
W IP++ P +G D+ F++PG++ +F + +TP+ +
Sbjct: 78 WGVGEPIPVYGPPDEEG-CDDL-----FKHPGIL--DFSKPLEAFEPFDLGGLRVTPLPL 129
Query: 160 V 160
V
Sbjct: 130 V 130
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
0.320 0.136 0.422
Gapped
Lambda K H
0.267 0.0535 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,312,568
Number of extensions: 829372
Number of successful extensions: 531
Number of sequences better than 10.0: 1
Number of HSP's gapped: 528
Number of HSP's successfully gapped: 24
Length of query: 184
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 93
Effective length of database: 6,901,388
Effective search space: 641829084
Effective search space used: 641829084
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 (21.8 bits)
S2: 56 (25.8 bits)