RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11150
(201 letters)
>gnl|CDD|185500 PTZ00175, PTZ00175, diphthine synthase; Provisional.
Length = 270
Score = 185 bits (473), Expect = 4e-59
Identities = 73/127 (57%), Positives = 98/127 (77%), Gaps = 2/127 (1%)
Query: 1 LYNFGETVSIPFWTESWKPDSFYDKIVENKSRGLHTLCLLDIQVKEPTLESLTKKTRQYL 60
LY FGETVSIPF+TE+WKPDSFYDKI N+ GLHTLCLLDI+VKE ++E+L K + Y
Sbjct: 126 LYRFGETVSIPFFTETWKPDSFYDKIKANRDNGLHTLCLLDIKVKERSVENLMKGRKIYE 185
Query: 61 PPRFMSVSQAAQQLVEITKTKPGLSTAD--LAVGIARVGSETQHIVATSLSDMTETNMGK 118
PPR+M+++QA +QL+E+ + K G A+ L VG+ARVGS+ Q IV+ +L D+ + + G
Sbjct: 186 PPRYMTINQAIEQLLEVEEKKGGGVIAEDTLVVGVARVGSDDQQIVSGTLEDLLDVDFGP 245
Query: 119 PLHSLII 125
PLHSL+I
Sbjct: 246 PLHSLVI 252
>gnl|CDD|212506 cd11647, Diphthine_synthase, Diphthine synthase, also known as
DPH5. Diphthine synthase, also known as diphthamide
biosynthesis S-adenosylmethionine-dependent
methyltransferase, participates in the posttranslational
modification of a specific histidine residue in
elongation factor 2 (EF-2) of eukaryotes and archaea to
diphthamide. It catalyzes the trimethylation step in
diphthamide biosynthesis. Diphthamide is the target of
diphtheria toxin, which ADP-ribosylates diphthamide and
inhibits protein synthesis, leading to host cell death.
Length = 241
Score = 164 bits (419), Expect = 2e-51
Identities = 68/127 (53%), Positives = 88/127 (69%), Gaps = 17/127 (13%)
Query: 1 LYNFGETVSIPFWTESWKPDSFYDKIVENKSRGLHTLCLLDIQVKEPTLESLTKKTRQYL 60
LY FG+TV+IPF TE W+PDS YD I EN SRGLHTLCLLDI+VKE
Sbjct: 126 LYKFGKTVTIPFPTEGWRPDSPYDVIKENLSRGLHTLCLLDIKVKE-------------- 171
Query: 61 PPRFMSVSQAAQQLVEI-TKTKPGLSTAD-LAVGIARVGSETQHIVATSLSDMTETNMGK 118
PR+M+ ++AA+QL+EI + K G+ + D LAVG+AR+GSE Q IVA +L ++ + G
Sbjct: 172 -PRYMTANEAAEQLLEIEEERKEGVISEDTLAVGVARLGSEDQKIVAGTLEELANYDFGG 230
Query: 119 PLHSLII 125
PLHSL+I
Sbjct: 231 PLHSLVI 237
>gnl|CDD|224711 COG1798, DPH5, Diphthamide biosynthesis methyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 260
Score = 122 bits (309), Expect = 1e-34
Identities = 49/127 (38%), Positives = 75/127 (59%), Gaps = 18/127 (14%)
Query: 1 LYNFGETVSIPFWTESWKPDSFYDKIVENKSRGLHTLCLLDIQVKEPTLESLTKKTRQYL 60
Y FG+TV++PF +E++ P S YD I EN RGLHTL LLDI+ E
Sbjct: 126 NYKFGKTVTLPFPSENFFPTSPYDVIKENLERGLHTLVLLDIKEDE-------------- 171
Query: 61 PPRFMSVSQAAQQLVEIT-KTKPGLSTAD-LAVGIARVGSETQHIVATSLSDMTETNMGK 118
R+M+ ++A + L+E + G+ T D LAV +AR GS + + A +L ++ + + G+
Sbjct: 172 --RYMTANEALELLLEAEERRGRGVLTEDTLAVVVARAGSGDEVVRAGTLEELADEDFGE 229
Query: 119 PLHSLII 125
PLHSL++
Sbjct: 230 PLHSLVV 236
>gnl|CDD|233007 TIGR00522, dph5, diphthine synthase. Alternate name: diphthamide
biosynthesis S-adenosylmethionine-dependent
methyltransferase. This protein participates in the
modification of a specific His of elongation factor 2 of
eukarotes and Archaea to diphthamide. The protein was
characterized in Saccharomyces cerevisiae and designated
DPH5 [Protein fate, Protein modification and repair].
Length = 257
Score = 114 bits (288), Expect = 1e-31
Identities = 45/127 (35%), Positives = 68/127 (53%), Gaps = 17/127 (13%)
Query: 1 LYNFGETVSIPFWTESWKPDSFYDKIVENKSRGLHTLCLLDIQVKEPTLESLTKKTRQYL 60
LY FG+T +I F+T++++P + Y+ I EN+ GLHTL LLDI KE
Sbjct: 126 LYKFGKTATIVFFTDNYRPQTPYNVIKENRKIGLHTLVLLDIHPKE-------------- 171
Query: 61 PPRFMSVSQAAQQLVEIT-KTKPGLSTADL-AVGIARVGSETQHIVATSLSDMTETNMGK 118
R M++ + + L+E K K G T D AV IAR GS + + ++ + G+
Sbjct: 172 -NRAMTIGEGLENLLEEEEKRKTGAITPDTYAVVIARAGSGKPVVKCDKIENLKNYDFGE 230
Query: 119 PLHSLII 125
PLH L++
Sbjct: 231 PLHCLVV 237
>gnl|CDD|235231 PRK04160, PRK04160, diphthine synthase; Provisional.
Length = 258
Score = 109 bits (274), Expect = 2e-29
Identities = 46/126 (36%), Positives = 70/126 (55%), Gaps = 18/126 (14%)
Query: 2 YNFGETVSIPFWTESWKPDSFYDKIVENKSRGLHTLCLLDIQVKEPTLESLTKKTRQYLP 61
Y FG++V++PF ++ P+S YD I +N RGLHTL LLDI+
Sbjct: 128 YKFGKSVTVPFPYGNFFPESPYDVIKDNLERGLHTLVLLDIKADG--------------- 172
Query: 62 PRFMSVSQAAQQLVEI-TKTKPGLSTAD-LAVGIARVGSETQHIVATSLSDMTETNMGKP 119
R+M+ ++A + L+E+ K G+ + D LAV +AR GS + A L ++ + + G P
Sbjct: 173 -RYMTANEALELLLELEEKRGEGVISEDTLAVVVARAGSPDPVVRAGRLEELADYDFGGP 231
Query: 120 LHSLII 125
LH LII
Sbjct: 232 LHILII 237
>gnl|CDD|219282 pfam07061, Swi5, Swi5. Swi5 is involved in meiotic DNA repair
synthesis and meiotic joint molecule formation. It is
known to interact with Swi2, Rhp51 and Swi6.
Length = 81
Score = 56.5 bits (137), Expect = 4e-11
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 122 SLIISDESKIKDLLEKEKLIDEELAHLEQAVEIRDVVMSKLHEYNDIKDATQIVIGTLAN 181
SL+ S + E LI E A + + + LHEYN+IKD Q +IG +A+
Sbjct: 4 SLLASIAELKAAKDQLESLIAELKAE-QDPEKTVKRHIRLLHEYNEIKDIGQGLIGLIAD 62
Query: 182 LQQVTVRKLHEDFGLD 197
+ V V+ ++E+FG+
Sbjct: 63 NRGVRVKDVYEEFGVG 78
>gnl|CDD|220187 pfam09340, NuA4, Histone acetyltransferase subunit NuA4. The NuA4
histone acetyltransferase (HAT) multisubunit complex is
responsible for acetylation of histone H4 and H2A
N-terminal tails in yeast. NuA4 complexes are highly
conserved in eukaryotes and play primary roles in
transcription, cellular response to DNA damage, and cell
cycle control.
Length = 80
Score = 28.4 bits (64), Expect = 0.76
Identities = 12/23 (52%), Positives = 20/23 (86%)
Query: 130 KIKDLLEKEKLIDEELAHLEQAV 152
K+K+LL+K+K ++EELA LE+ +
Sbjct: 3 KLKELLQKKKKLEEELAALERQI 25
>gnl|CDD|226821 COG4386, COG4386, Mu-like prophage tail sheath protein gpL [General
function prediction only].
Length = 487
Score = 29.8 bits (67), Expect = 0.87
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 75 VEITKTKPGLSTADLAVGIARVGSETQHIVATSLSDMTETNMGKPLHSLIISDE 128
IT G + D+A +A VG HI+ +D + N+ +SD
Sbjct: 198 AAITAMTGGAANPDIARALAGVGDRQYHIIINPYTD--DANL------KALSDH 243
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 28.9 bits (65), Expect = 2.1
Identities = 11/44 (25%), Positives = 24/44 (54%)
Query: 126 SDESKIKDLLEKEKLIDEELAHLEQAVEIRDVVMSKLHEYNDIK 169
E ++++L +K K +++ L LE+ E+ + +K E +K
Sbjct: 335 EKEERLEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLK 378
>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This
protein, TorS, is part of a regulatory system for the
torCAD operon that encodes the pterin molybdenum
cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
reductase (TorA), a cognate chaperone (TorD), and a
penta-haem cytochrome (TorC). TorS works together with
the inducer-binding protein TorT and the response
regulator TorR. TorS contains histidine kinase ATPase
(pfam02518), HAMP (pfam00672), phosphoacceptor
(pfam00512), and phosphotransfer (pfam01627) domains and
a response regulator receiver domain (pfam00072) [Signal
transduction, Two-component systems].
Length = 968
Score = 28.6 bits (64), Expect = 2.7
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 10/63 (15%)
Query: 122 SLIISDESKIKDLLEKEK----------LIDEELAHLEQAVEIRDVVMSKLHEYNDIKDA 171
++ +++ S I DL+E K LI+ +L E+ E+R + + L+ +D K +
Sbjct: 164 TIALANVSGIYDLIESGKNDQVYQALDDLIEVDLDLAERLNELRLLALRVLNTIDDTKTS 223
Query: 172 TQI 174
+
Sbjct: 224 QDL 226
>gnl|CDD|185269 PRK15371, PRK15371, effector protein YopJ; Provisional.
Length = 287
Score = 27.7 bits (62), Expect = 4.0
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 54 KKTRQYLPPRFMSVSQAAQQLVEITKTKPG 83
K YLP F +Q ++L E T P
Sbjct: 212 DKLDPYLPVTFYKHTQGKKRLNEYLNTNPQ 241
>gnl|CDD|241190 cd12746, RRM2_RBM12B, RNA recognition motif 2 in RNA-binding
protein 12B (RBM12B) and similar proteins. This
subgroup corresponds to the RRM2 of RBM12B which
contains five distinct RNA binding motifs (RRMs), also
termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains). Its biological role
remains unclear. .
Length = 78
Score = 25.9 bits (57), Expect = 4.9
Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 38 CLLDIQVKEPTLESLTKKTRQYLPPRFMSVSQAAQQ 73
++ KE +E L K+ RQY+ R++ +S+ ++
Sbjct: 42 SMVKFATKEDAIEGL-KRDRQYMGSRYIEISRTTEE 76
>gnl|CDD|233511 TIGR01654, bact_immun_7tm, bacteriocin-associated integral membrane
(putative immunity) protein. This model represents a
family of integral membrane proteins, most of which are
about 650 residues in size and predicted to span the
membrane seven times. Nearly half of the members of this
family are found in association with a member of the
lactococcin 972 family of bacteriocins (TIGR01653).
Others may be associated with uncharacterized proteins
that may also act as bacteriocins. Although this protein
is suggested to be an immunity protein, and the
bacteriocin is suggested to be exported by a
Sec-dependent process, the role of this protein is
unclear [Cellular processes, Toxin production and
resistance].
Length = 679
Score = 27.8 bits (62), Expect = 5.0
Identities = 16/94 (17%), Positives = 31/94 (32%), Gaps = 20/94 (21%)
Query: 99 ETQHIVATSLSDMTETNMG--------------KPLHSLIISDESKIKDLLEKEKLIDEE 144
T++I + +T + + + LL+K L+D
Sbjct: 492 RTENISDPIIVVVTPNDFSDSEKASFSHVTLSVNSIDQENFKTYQALLPLLKK-YLLDGN 550
Query: 145 LAHLEQAVEIRDVVMSKLHEYNDIKDATQIVIGT 178
++HL + D+V + E D T + I
Sbjct: 551 ISHL---SSVNDIVQEDIDEIQD--ALTNLNILF 579
>gnl|CDD|128594 smart00299, CLH, Clathrin heavy chain repeat homology.
Length = 140
Score = 26.9 bits (60), Expect = 5.4
Identities = 9/46 (19%), Positives = 22/46 (47%)
Query: 130 KIKDLLEKEKLIDEELAHLEQAVEIRDVVMSKLHEYNDIKDATQIV 175
K+ L EK KL +E + ++ +D +++ + + + A +
Sbjct: 74 KVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYF 119
>gnl|CDD|240325 PTZ00237, PTZ00237, acetyl-CoA synthetase; Provisional.
Length = 647
Score = 27.4 bits (61), Expect = 5.6
Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 15/61 (24%)
Query: 2 YNFGETVSIPFWTESWKPDSFYDKIVENKSRG------------LHTLC--LLDIQVKEP 47
N+ + FW E K +DK+ + G L+T C +LDI VK P
Sbjct: 14 SNYANSNPESFWDEVAKKYVHWDKMYDKVYSGDEIYPDWFKGGELNT-CYNVLDIHVKNP 72
Query: 48 T 48
Sbjct: 73 L 73
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 26.9 bits (60), Expect = 7.0
Identities = 14/64 (21%), Positives = 31/64 (48%), Gaps = 11/64 (17%)
Query: 118 KPLHSLIISD--------ESKIKDLLEKEKLIDEELAHLEQAVEIRDVVMSKLHEYNDIK 169
+PL I++D ++ ++ LL+K K + + +H++ ++DVV KL +
Sbjct: 42 EPLKKPIVADRLGNLYNKDAVLEALLDKSKSLPKAFSHIKG---LKDVVELKLTPNPAFE 98
Query: 170 DATQ 173
+
Sbjct: 99 GSKD 102
>gnl|CDD|236514 PRK09434, PRK09434, aminoimidazole riboside kinase; Provisional.
Length = 304
Score = 26.8 bits (60), Expect = 8.3
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 82 PGLSTADLAVGIARVGSETQHI 103
PG + A++AVGIAR+G E+ I
Sbjct: 27 PGGAPANVAVGIARLGGESGFI 48
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
0.314 0.131 0.364
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,002,207
Number of extensions: 912808
Number of successful extensions: 917
Number of sequences better than 10.0: 1
Number of HSP's gapped: 907
Number of HSP's successfully gapped: 55
Length of query: 201
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 109
Effective length of database: 6,857,034
Effective search space: 747416706
Effective search space used: 747416706
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.3 bits)