RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10120
(510 letters)
>gnl|CDD|216059 pfam00685, Sulfotransfer_1, Sulfotransferase domain.
Length = 254
Score = 217 bits (555), Expect = 2e-67
Identities = 95/294 (32%), Positives = 141/294 (47%), Gaps = 41/294 (13%)
Query: 173 PDDVWLVSFPRTGSTWAQEMVWLLGHDLAATQIVYVA-RNPKDVLTALVANDPGDWKNEI 231
DDV +V++P++G+TW QE++ L+ + + NP + L D ++
Sbjct: 1 DDDVLIVTYPKSGTTWLQEILSLIPNRGDFEKFEEPHLFNPHNRSPFLEWYDLFV-IFDV 59
Query: 232 PNSVDYVQTLASPRFIKTHLPYSLLPKQIATVKPKVIEGMIEGTNIVGRPPLDYIKQIMR 291
+ L SPR IKTHLP LLPK + K+I
Sbjct: 60 AEGPVRLNALPSPRIIKTHLPLHLLPKSLWDPNAKII----------------------- 96
Query: 292 DMNVVYVARNPKDVCVSYYHYCKLIHHLQDPEGKYFDDFCELFLQGNAPMGPICPHMLEF 351
Y+ RNPKDV VSYYH+ ++ L+ P +F E FL G G H+ +
Sbjct: 97 -----YLVRNPKDVAVSYYHFFRMAKILKAPG--TPFEFVEDFLNGKVNCGSYFDHVKGW 149
Query: 352 WNKRTEDNILFLKYEDMKKDQKGAILQTAQFLGKQISDDNIAALIDHLSFNKMRDNPATN 411
W R NILFL+YED+KKD +G I + A+FLG ++++ + ++ HLSF M+ NP N
Sbjct: 150 WKLRPPGNILFLRYEDLKKDPRGEIKKIAEFLGIPLTEEELDKIVKHLSFENMKGNPCLN 209
Query: 412 LEPILQKMDKPAEKRNSEDTFLRKGVVGDYKNQMSPELIRKFDDFVSEGLAGSG 465
++ F RKG+VGD+KN + E KFD+ E + G+G
Sbjct: 210 ---------YSKLPKHEVSPFFRKGLVGDWKNYFTVEQAEKFDEIYQEKMKGTG 254
>gnl|CDD|177822 PLN02164, PLN02164, sulfotransferase.
Length = 346
Score = 107 bits (268), Expect = 1e-25
Identities = 90/350 (25%), Positives = 160/350 (45%), Gaps = 74/350 (21%)
Query: 136 RPDDVWLVSFPRTGSTWAQEMVWLLGHDLDYEGAKVRPDDVWLVSFPRTGSTWAQEMVWL 195
RP + L+ + G W Q ++ L H ++ + RP+D + S+P+TG+TW + + +
Sbjct: 47 RPKEP-LIEY--GGHWWLQPLLEGLLHAQEF--FQARPNDFLVCSYPKTGTTWLKALTFA 101
Query: 196 LGH----DLAATQIVYVARNPKDVLTALVANDPGDWKNEIP--NSVDYVQTLASPRFIKT 249
+ + D ++ + + RNP + + + + + P SVD ++ + F T
Sbjct: 102 IANRSRFDDSSNPL--LKRNPHEFVPYI--------EIDFPFFPSVDVLKDKGNTLF-ST 150
Query: 250 HLPYSLLPKQIATVKPKVIEGMIEGTNIVGRPPLDYIKQIMRDMNVVYVARNPKDVCVSY 309
H+PY LLP + K +VY+ R+PKD +S
Sbjct: 151 HIPYGLLPDSVVKSGCK----------------------------MVYIWRDPKDTFISM 182
Query: 310 YHYCKLIHHLQDPEG------KYFDDFCELFLQGNAPMGPICPHMLEFWNKRTE--DNIL 361
+ + +H + +G + FD FC +G + GP H+L +W E D IL
Sbjct: 183 WTF---LHKERSQQGPLNSLEESFDMFC----RGLSVYGPYLDHVLGYWKAYQENPDRIL 235
Query: 362 FLKYEDMKKDQKGAILQTAQFLGKQISDDN-----IAALIDHLSFNKMRDNPATNLEPIL 416
FLKYE M+ D + + A+F+G + + + ++ SF +++ A E
Sbjct: 236 FLKYETMRADPLPYVKRLAEFMGYGFTAEEEEKGVVEKVVKLCSFETLKNLEANKGEKD- 294
Query: 417 QKMDKPAEKRNSEDTFLRKGVVGDYKNQMSPELIRKFDDFVSEGLAGSGL 466
+ D+PA NS + RKG VGD++N ++PE+ + D + E G+GL
Sbjct: 295 -REDRPAVYANS--AYFRKGKVGDWQNYLTPEMAARIDGLMEEKFKGTGL 341
>gnl|CDD|131369 TIGR02316, propion_prpE, propionate--CoA ligase. This family
contains one of three readily separable clades of
proteins in the group of acetate and propionate--CoA
ligases. Characterized members of this family act on
propionate. From propionyl-CoA, there is a cyclic
degradation pathway: it is ligated by PrpC to the TCA
cycle intermediate oxaloacetate, acted upon further by
PrpD and an aconitase, then cleaved by PrpB to pyruvate
and the TCA cycle intermediate succinate.
Length = 628
Score = 31.4 bits (71), Expect = 1.3
Identities = 27/107 (25%), Positives = 40/107 (37%), Gaps = 28/107 (26%)
Query: 140 VWLVSFPRTGSTW--AQEMVWLLGHDLD-------------YEGAKVRPD-DVWL----- 178
+W + R G A ++ W++GH YEG PD VW
Sbjct: 265 MWAIFGIRAGQVMFSASDVGWVVGHSYIVYAPLLAGAATVLYEGLPTNPDPGVWWSIVER 324
Query: 179 --VSFPRTGSTW-----AQEMVWLLGHDLAATQIVYVARNPKDVLTA 218
V + T Q+ WL HDL++ +++A P D TA
Sbjct: 325 YGVRTMFSAPTAIRVLKKQDAAWLRKHDLSSLHWLFLAGEPLDEPTA 371
>gnl|CDD|219797 pfam08326, ACC_central, Acetyl-CoA carboxylase, central region.
The region featured in this family is found in various
eukaryotic acetyl-CoA carboxylases, N-terminal to the
catalytic domain (pfam01039). This enzyme (EC:6.4.1.2)
is involved in the synthesis of long-chain fatty acids,
as it catalyzes the rate-limiting step in this process.
Length = 707
Score = 30.7 bits (70), Expect = 1.8
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 351 FWNKRTEDNILFLKYE---DMKKDQKGAILQTAQFLGKQISDDN--IAALIDHLSFNKMR 405
F N R ED IL L+ E D+ K ++ ++ N + AL+D L + +
Sbjct: 169 FSNGREEDVILKLRDENKDDLSK-----VVDIV-LSHSRVKAKNKLVLALLDQLVYPLLP 222
Query: 406 DNPATNLEPILQK 418
+L L +
Sbjct: 223 STVPASLRDALSR 235
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 30.6 bits (70), Expect = 2.0
Identities = 24/100 (24%), Positives = 35/100 (35%), Gaps = 28/100 (28%)
Query: 205 IVYVARNPKDVLTALVANDPGDWKNEIPNSVDYVQTLASPRFIKTHLPYSLLPKQIAT-- 262
IV V NP D+LT + G KN + S L S RF +A
Sbjct: 113 IVLVVTNPVDILTYIAMKFSGFPKNRVIGSGT---VLDSARFR----------TFLAEKL 159
Query: 263 -VKPKVIEGMIEG------------TNIVGRPPLDYIKQI 289
V PK + + G + G+P + +K+
Sbjct: 160 GVSPKDVHAYVIGEHGDTMVPLWSQATVGGKPLEELLKED 199
>gnl|CDD|236758 PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA;
Provisional.
Length = 413
Score = 30.5 bits (69), Expect = 2.0
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 16/68 (23%)
Query: 376 ILQTAQFLGKQISDD-------NIAALIDHLSFNKMRDNPA-------TNLEPILQKMDK 421
ILQ AQ +G +ISD+ NIAA ++++ ++MR A T I ++M
Sbjct: 62 ILQMAQKMGVKISDEQLDQAIANIAAQ-NNMTLDQMRSRLAYDGLNYNTYRNQIRKEM-I 119
Query: 422 PAEKRNSE 429
+E RN+E
Sbjct: 120 ISEVRNNE 127
>gnl|CDD|239298 cd03000, PDI_a_TMX3, PDIa family, TMX3 subfamily; composed of
eukaryotic proteins similar to human TMX3, a TRX related
transmembrane protein containing one redox active TRX
domain at the N-terminus and a classical ER retrieval
sequence for type I transmembrane proteins at the
C-terminus. The TMX3 transcript is found in a variety of
tissues with the highest levels detected in skeletal
muscle and the heart. In vitro, TMX3 showed oxidase
activity albeit slightly lower than that of protein
disulfide isomerase.
Length = 104
Score = 29.0 bits (65), Expect = 2.0
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 134 EVRPDDVWLVSF--PRTGSTWAQEMVW-LLGHDLDYEGAKVR 172
+VR +D+WLV F P G E VW +G +L G+ VR
Sbjct: 11 DVRKEDIWLVDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVR 52
>gnl|CDD|179177 PRK00945, PRK00945, acetyl-CoA decarbonylase/synthase complex
subunit epsilon; Provisional.
Length = 171
Score = 29.2 bits (66), Expect = 3.2
Identities = 23/102 (22%), Positives = 36/102 (35%), Gaps = 17/102 (16%)
Query: 244 PRFIKTHLPYSLLPKQIATVKPKVIEGMIE---------GTNIVGRPPL-DYIKQIMRDM 293
R PK V PK+ MI+ G+ ++ L D +I +
Sbjct: 3 DRTKPYQPTAISGPKHAKIVSPKIAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKA 62
Query: 294 NVVYVAR-------NPKDVCVSYYHYCKLIHHLQDPEGKYFD 328
N+ A K V Y + +L ++L+DP K D
Sbjct: 63 NIPVAATGGSYKGLIDKGVDAKYINLHELTNYLKDPNWKGLD 104
>gnl|CDD|218800 pfam05895, DUF859, Siphovirus protein of unknown function (DUF859).
This family consists of several uncharacterized
proteins from the Siphoviruses as well as one bacterial
sequence. Some of the members of this family are
described as putative minor structural proteins.
Length = 534
Score = 29.7 bits (67), Expect = 3.9
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 14/95 (14%)
Query: 213 KDVLTALVANDPGDWKNEIPNSVD-----YVQTLASPRFIKTH-LPYSL-LPKQIATVKP 265
+V T++ P D N+IPNS YV T FI T ++L +P +VKP
Sbjct: 169 SNVGTSVTWTPPLDLANDIPNSTSGTGTIYVDTYNGGTFIGTQSNTFTLNVPD---SVKP 225
Query: 266 KVIEGMIEGTNIVGR---PPLDYIKQIMRDMNVVY 297
+ + TN V + +++ QIM ++ V +
Sbjct: 226 TLSGISLSDTNTVAQNIVTGNNFV-QIMSNIKVTF 259
>gnl|CDD|176503 cd08560, GDPD_EcGlpQ_like_1, Glycerophosphodiester
phosphodiesterase domain similar to Escherichia coli
periplasmic phosphodiesterase (GlpQ) include
uncharacterized proteins. This subfamily corresponds to
the glycerophosphodiester phosphodiesterase domain
(GDPD) present in a group of uncharacterized
glycerophosphodiester phosphodiesterases (GP-GDE, EC
3.1.4.46) and their hypothetical homologs. Members in
this subfamily show high sequence similarity to
Escherichia coli periplasmic phosphodiesterase GlpQ,
which catalyzes the Ca2+-dependent degradation of
periplasmic glycerophosphodiesters to produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols.
Length = 356
Score = 29.7 bits (67), Expect = 4.1
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 148 TGSTWAQEMVWLLGHDLDYEGAKVRPDDVWLVSF 181
T +AQ+M+ D +Y+ A V P VW SF
Sbjct: 185 TQEDYAQQMI-----D-EYKEAGVPPSRVWPQSF 212
>gnl|CDD|221720 pfam12697, Abhydrolase_6, Alpha/beta hydrolase family. This family
contains alpha/beta hydrolase enzymes of diverse
specificity.
Length = 187
Score = 28.9 bits (65), Expect = 4.5
Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 2/65 (3%)
Query: 193 VWLLGHDLAATQIVYVARNPKDVLTALVANDPG--DWKNEIPNSVDYVQTLASPRFIKTH 250
V L+GH L + A + + LV P D + + + L +
Sbjct: 67 VVLVGHSLGGAVALAAAARRPERVAGLVLISPPLRDLEELLAADAAALLALLRAALLDAD 126
Query: 251 LPYSL 255
L +L
Sbjct: 127 LREAL 131
>gnl|CDD|223363 COG0286, HsdM, Type I restriction-modification system
methyltransferase subunit [Defense mechanisms].
Length = 489
Score = 29.3 bits (66), Expect = 4.9
Identities = 17/96 (17%), Positives = 31/96 (32%), Gaps = 2/96 (2%)
Query: 360 ILFLKYEDMKKDQKGAILQTAQFLGKQISDDNIAALIDHLSFNKMRDNPATNLEPILQKM 419
+LFLKY K + + K + + F+ ++ N NL L
Sbjct: 34 LLFLKYLSDKFELEFEAELEEDNEAKYAYPAKGFFIPERYRFDDLKKNAEENLGDFLDNA 93
Query: 420 DKPAEK--RNSEDTFLRKGVVGDYKNQMSPELIRKF 453
+ E+ + + F K +L+ K
Sbjct: 94 LRKIEEKNPDLKGVFADLDFNDALKLGSLLKLLNKV 129
>gnl|CDD|216227 pfam00982, Glyco_transf_20, Glycosyltransferase family 20. Members
of this family belong to glycosyl transferase family 20.
OtsA (Trehalose-6-phosphate synthase) is homologous to
regions in the subunits of yeast trehalose-6-phosphate
synthase/phosphate complex.
Length = 470
Score = 29.2 bits (66), Expect = 6.5
Identities = 11/63 (17%), Positives = 20/63 (31%), Gaps = 7/63 (11%)
Query: 274 GTNIVGRPPLDYIKQIMRDMNVVYVARNPKDVCVSYYH-YCK-----LIH-HLQDPEGKY 326
G + P D + Q++++ + YY+ + L H L
Sbjct: 53 GVPVDEDEPKDRVSQLLKEKFTCVPVFLDDEDVDEYYNGFSNSILWPLFHYRLPPNNEDE 112
Query: 327 FDD 329
FD
Sbjct: 113 FDR 115
>gnl|CDD|225702 COG3160, Rsd, Regulator of sigma D [Transcription].
Length = 162
Score = 27.9 bits (62), Expect = 8.2
Identities = 8/37 (21%), Positives = 20/37 (54%)
Query: 76 YNMETKEPQYVTYEKLESECGDKLDSMFGLKDCLLRV 112
N + +++ S+ G+ L++ F L+D L+++
Sbjct: 113 LNTAIDHDNCLEFQQALSDIGEALEARFVLEDQLIQL 149
>gnl|CDD|198428 cd10030, UDG_F4_TTUDGA_like, Family 4 Uracil-DNA glycosylase (UDG),
found exclusively in thermophilic organisms. The
enzymes of Family 4 Uracil-DNA glycosylase (UDG), found
only in thermophilic organisms, are thermostable
enzymes. Uracil-DNA glycosylases (UDGs) are DNA repair
enzymes that catalyze the removal of mismatched uracil
from DNA to initiate DNA base excision repair pathway.
The Thermus thermophilus enzyme TTUDGA removes uracil
from both, ssDNA and dsDNA, but not thymine from a G:T
mismatch. These details suggest that the mechanism by
which Family 4 UDGs remove uracils from DNA is similar
to that of Family 1 enzymes. The thermostability of the
enzyme may be linked to the presence of an iron-sulfur
cluster, salt-bridges and ion pairs on the molecular
surface as well as prolines on loops and turns, as
commonly found in the Family 4 enzymes. Uracil in DNA
can arise as a result of mis-incorporation of dUMP
residues by DNA polymerase or deamination of cytosine.
Uracil mispaired with guanine in DNA is one of the major
pro-mutagenic events, causing G:C->A:T mutations.
Length = 164
Score = 27.8 bits (63), Expect = 9.2
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 2/22 (9%)
Query: 247 IKTHLPYSLLPKQIATVKPKVI 268
I P+ L +QI ++PK+I
Sbjct: 85 IAACRPF--LERQIELIRPKII 104
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 0.138 0.421
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,885,414
Number of extensions: 2681482
Number of successful extensions: 2151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2140
Number of HSP's successfully gapped: 24
Length of query: 510
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 409
Effective length of database: 6,457,848
Effective search space: 2641259832
Effective search space used: 2641259832
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: 61 (27.4 bits)