RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18129
(470 letters)
>gnl|CDD|201070 pfam00191, Annexin, Annexin. This family of annexins also includes
giardin that has been shown to function as an annexin.
Length = 66
Score = 94.0 bits (235), Expect = 6e-24
Identities = 36/66 (54%), Positives = 48/66 (72%)
Query: 403 YLARRLKDAMAGIGTDDKTLIRIIVTRSEIDLGDIKQNFLKLYGKTLEEYIKDDCSGDYK 462
Y A L+ AM G+GTD+ TLIRI+ TRS L I++ + KLYGK LE+ IK + SGD++
Sbjct: 1 YDAELLRAAMKGLGTDEDTLIRILATRSNAQLQAIREAYKKLYGKDLEKDIKSETSGDFE 60
Query: 463 RLLLAL 468
+LLLAL
Sbjct: 61 KLLLAL 66
Score = 87.1 bits (217), Expect = 2e-21
Identities = 31/64 (48%), Positives = 43/64 (67%)
Query: 102 AKELHKAISGLGTDEKALVEILTTLSNFGIRTITQVYETAYKASLEKDIKGDTSGHFKRL 161
A+ L A+ GLGTDE L+ IL T SN ++ I + Y+ Y LEKDIK +TSG F++L
Sbjct: 3 AELLRAAMKGLGTDEDTLIRILATRSNAQLQAIREAYKKLYGKDLEKDIKSETSGDFEKL 62
Query: 162 LVSL 165
L++L
Sbjct: 63 LLAL 66
Score = 82.1 bits (204), Expect = 1e-19
Identities = 29/66 (43%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 328 DAQALLDAGVKKWGTDESTFNSILVTRSYQQLRRTFKEYEELAGHDIEDAIKGEMSGGVK 387
DA+ LL A +K GTDE T IL TRS QL+ + Y++L G D+E IK E SG +
Sbjct: 2 DAE-LLRAAMKGLGTDEDTLIRILATRSNAQLQAIREAYKKLYGKDLEKDIKSETSGDFE 60
Query: 388 DGFLSI 393
L++
Sbjct: 61 KLLLAL 66
Score = 79.8 bits (198), Expect = 8e-19
Identities = 37/79 (46%), Positives = 44/79 (55%), Gaps = 14/79 (17%)
Query: 224 DAEALRAAMKGLGTDEKAIIDILAKRSIVQRMEITDAFKTLYGKLRRTFKEYEELAGHDI 283
DAE LRAAMKGLGTDE +I ILA RS Q I +A+K LYGK D+
Sbjct: 2 DAELLRAAMKGLGTDEDTLIRILATRSNAQLQAIREAYKKLYGK--------------DL 47
Query: 284 EDAIKGEMSGGVKDGFLSI 302
E IK E SG + L++
Sbjct: 48 EKDIKSETSGDFEKLLLAL 66
Score = 32.0 bits (74), Expect = 0.057
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 73 DLIRELKSELSGNFEDAVVAL 93
DL +++KSE SG+FE ++AL
Sbjct: 46 DLEKDIKSETSGDFEKLLLAL 66
>gnl|CDD|197661 smart00335, ANX, Annexin repeats.
Length = 53
Score = 83.2 bits (207), Expect = 4e-20
Identities = 30/53 (56%), Positives = 39/53 (73%)
Query: 416 GTDDKTLIRIIVTRSEIDLGDIKQNFLKLYGKTLEEYIKDDCSGDYKRLLLAL 468
GTD+KTLI I+ +RS L IKQ + K YGK LE+ IK + SGD+++LLLAL
Sbjct: 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRYGKDLEDDIKSETSGDFEKLLLAL 53
Score = 76.7 bits (190), Expect = 9e-18
Identities = 27/53 (50%), Positives = 37/53 (69%)
Query: 113 GTDEKALVEILTTLSNFGIRTITQVYETAYKASLEKDIKGDTSGHFKRLLVSL 165
GTDEK L+EIL + SN ++ I Q Y+ Y LE DIK +TSG F++LL++L
Sbjct: 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRYGKDLEDDIKSETSGDFEKLLLAL 53
Score = 66.7 bits (164), Expect = 2e-14
Identities = 22/53 (41%), Positives = 31/53 (58%)
Query: 341 GTDESTFNSILVTRSYQQLRRTFKEYEELAGHDIEDAIKGEMSGGVKDGFLSI 393
GTDE T IL +RS QL+ + Y++ G D+ED IK E SG + L++
Sbjct: 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRYGKDLEDDIKSETSGDFEKLLLAL 53
Score = 63.2 bits (155), Expect = 5e-13
Identities = 27/67 (40%), Positives = 34/67 (50%), Gaps = 14/67 (20%)
Query: 236 GTDEKAIIDILAKRSIVQRMEITDAFKTLYGKLRRTFKEYEELAGHDIEDAIKGEMSGGV 295
GTDEK +I+ILA RS Q I A+K YGK D+ED IK E SG
Sbjct: 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRYGK--------------DLEDDIKSETSGDF 46
Query: 296 KDGFLSI 302
+ L++
Sbjct: 47 EKLLLAL 53
Score = 34.3 bits (80), Expect = 0.008
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 73 DLIRELKSELSGNFEDAVVAL 93
DL ++KSE SG+FE ++AL
Sbjct: 33 DLEDDIKSETSGDFEKLLLAL 53
>gnl|CDD|132589 TIGR03550, F420_cofG, 7,8-didemethyl-8-hydroxy-5-deazariboflavin
synthase, CofG subunit. This model represents either a
subunit or a domain, depending on whether or not the
genes are fused, of a bifunctional protein that
completes the synthesis of
7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is
the chromophore of coenzyme F(420), involved in
methanogenesis in methanogenic archaea but found in
certain other lineages as well. The chromophore also
occurs as a cofactor in DNA photolyases in Cyanobacteria
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 322
Score = 35.7 bits (83), Expect = 0.038
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 308 AKELKSRDESVEVDPQLARADAQALLDAGVKKWG 341
A+ + D S++V P L R D + LLDAG+ WG
Sbjct: 231 ARLILPPDISIQVPPNLNREDYRLLLDAGIDDWG 264
Score = 34.6 bits (80), Expect = 0.098
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 171 DESVEVDPQLARADAQALLDAGVKKWG 197
D S++V P L R D + LLDAG+ WG
Sbjct: 238 DISIQVPPNLNREDYRLLLDAGIDDWG 264
>gnl|CDD|233566 TIGR01771, L-LDH-NAD, L-lactate dehydrogenase. This model
represents the NAD-dependent L-lactate dehydrogenases
from bacteria and eukaryotes. This enzyme function as as
the final step in anaerobic glycolysis. Although lactate
dehydrogenases have in some cases been mistaken for
malate dehydrogenases due to the similarity of these two
substrates and the apparent ease with which evolution
can toggle these activities, critical residues have been
identified which can discriminate between the two
activities. At the time of the creation of this model no
hits above the trusted cutoff contained critical
residues typical of malate dehydrogenases [Energy
metabolism, Anaerobic, Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 299
Score = 32.9 bits (76), Expect = 0.27
Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 227 ALRAAMKGLGTDEKAIIDILAKRSIVQRMEITDAFKTLYGKLRRTFKEYEELAGHDI 283
A +G+ DE +IDI ++ + M++ A L + +Y + D+
Sbjct: 12 AFALLNQGIA-DEIVLIDINKDKAEGEAMDLQHAASFLPTPKKIRSGDYSDCKDADL 67
>gnl|CDD|188642 cd00955, Transaldolase_like, Transaldolase-like proteins from
plants and bacteria. Transaldolase-like proteins from
plants and bacteria. Transaldolase is found in the
non-oxidative branch of the pentose phosphate pathway,
that catalyze the reversible transfer of a
dihydroxyacetone group from fructose-6-phosphate to
erythrose-4-phosphate yielding sedoheptulose-7-phosphate
and glyceraldehyde-3-phosphate. They are members of the
class I aldolases, who are characterized by using a
Schiff-base mechanism for stabilization of the reaction
intermediates.
Length = 338
Score = 31.9 bits (73), Expect = 0.59
Identities = 25/87 (28%), Positives = 35/87 (40%), Gaps = 23/87 (26%)
Query: 259 DAFKTLYGKLRRTFKEYEELAGHDIEDAIKG-----EMSGGVKDGFLSIGFDSRAKELKS 313
D + L G+ YE LA DI+DA E +GG DG++S+
Sbjct: 48 DQIRALKGQGLDAEAIYEALAIEDIQDACDLLAPVYEQTGG-NDGYVSL----------- 95
Query: 314 RDESVEVDPQLARADAQALLDAGVKKW 340
EV P+LA D Q + + W
Sbjct: 96 -----EVSPRLAD-DTQGTIAEAKRLW 116
>gnl|CDD|234492 TIGR04188, methyltr_grsp, methyltransferase, ATP-grasp peptide
maturase system. Members of this protein family are
predicted SAM-dependent methyltransferases that
regularly occur in the context of a putative peptide
modification ATP-grasp enzyme (TIGR04187, related to
enzymes of microviridin maturation) and a putative
ribosomal peptide modification target (TIGR04186).
Length = 363
Score = 31.6 bits (72), Expect = 0.84
Identities = 13/24 (54%), Positives = 13/24 (54%)
Query: 173 SVEVDPQLARADAQALLDAGVKKW 196
SVEVDP LA A AL AG
Sbjct: 136 SVEVDPGLAARAASALAAAGYAPT 159
Score = 31.6 bits (72), Expect = 0.84
Identities = 13/24 (54%), Positives = 13/24 (54%)
Query: 317 SVEVDPQLARADAQALLDAGVKKW 340
SVEVDP LA A AL AG
Sbjct: 136 SVEVDPGLAARAASALAAAGYAPT 159
>gnl|CDD|180485 PRK06245, cofG, FO synthase subunit 1; Reviewed.
Length = 336
Score = 31.4 bits (72), Expect = 1.0
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 308 AKELKSRDESVEVDPQLARADAQALLDAGVKKWG 341
A+ + D S++V P L R LLDAG G
Sbjct: 235 ARLILPPDISIQVPPNLNRDTGLLLLDAGADDLG 268
Score = 29.9 bits (68), Expect = 3.1
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 171 DESVEVDPQLARADAQALLDAGVKKWG 197
D S++V P L R LLDAG G
Sbjct: 242 DISIQVPPNLNRDTGLLLLDAGADDLG 268
>gnl|CDD|140267 PTZ00240, PTZ00240, 60S ribosomal protein P0; Provisional.
Length = 323
Score = 30.7 bits (69), Expect = 1.7
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 257 ITDAFKTLYGKLRRTFKEYEELAGHDI-EDAIKGEMSGGVKDGFLSIGFDSRAKELKSRD 315
+ DAFK L T E+EE G ++ E A++G + GG + A +++
Sbjct: 248 LVDAFKNLLAVSVATSYEFEEHNGKELREAALEGLLGGGGSAAAEAAAAAPAAASAAAKE 307
Query: 316 ESVEVD 321
E E D
Sbjct: 308 EEEESD 313
>gnl|CDD|211620 TIGR01038, L22_arch, ribosomal protein
L22(archaeal)/L17(eukaryotic/archaeal). This model
describes the ribosomal protein of the eukaryotic
cytosol and of the Archaea, variously designated as L17,
L22, and L23. The corresponding bacterial homolog,
described by a separate model, is designated L22
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 150
Score = 29.4 bits (66), Expect = 2.0
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 220 NAKADAEALRAAMKGLGTDEKAIIDILAKRSIVQRMEITDAF 261
NA+A+AE KGL ++ II I A + R + AF
Sbjct: 94 NAEANAEY-----KGLDVEKLVIIHIQANKGPKIRRWMPRAF 130
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 29.8 bits (68), Expect = 3.5
Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 213 VFPAPNFNAKADAEALRAAMKG----LGTDEKAIIDILAKRSIVQRMEITD 259
V P+ + +AL+A +G L ++ ++ L KR +V+ E T+
Sbjct: 124 VILKPDAYEDPEEKALKALAEGDKEELSEEDLKVLKELKKRKLVEEKERTE 174
>gnl|CDD|176160 cd08471, PBP2_CrgA_like_2, The C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator CrgA-like, contains the type 2 periplasmic
binding fold. This CD represents the substrate binding
domain of an uncharacterized LysR-type transcriptional
regulator (LTTR) CrgA-like 2. The LTTRs are acting as
both auto-repressors and activators of target promoters,
controlling operons involved in a wide variety of
cellular processes such as amino acid biosynthesis, CO2
fixation, antibiotic resistance, degradation of aromatic
compounds, nodule formation of nitrogen-fixing bacteria,
and synthesis of virulence factors, to name a few. In
contrast to the tetrameric form of other LTTRs, CrgA
from Neisseria meningitides assembles into an octameric
ring, which can bind up to four 63-bp DNA
oligonucleotides. Phylogenetic cluster analysis showed
that the CrgA-like regulators form a subclass of the
LTTRs that function as octamers. The CrgA is an
auto-repressor of its own gene and activates the
expression of the mdaB gene which coding for an
NADPH-quinone reductase and that its action is increased
by MBL (alpha-methylene-gamma-butyrolactone), an inducer
of NADPH-quinone oxidoreductase. The structural
topology of this substrate-binding domain is most
similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 201
Score = 29.0 bits (66), Expect = 3.8
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 20/67 (29%)
Query: 314 RDESVEVDPQLARADAQALLDAGVKKWGTDESTFNSILVTR--SYQ--------QLRRTF 363
++ SV V P+L +A + A + G +TR SYQ +L+R
Sbjct: 117 KERSVRVRPRLTVNTVEAAIAAALAGLG----------LTRVLSYQVAEELAAGRLQRVL 166
Query: 364 KEYEELA 370
+++E
Sbjct: 167 EDFEPPP 173
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 29.1 bits (66), Expect = 4.5
Identities = 16/66 (24%), Positives = 22/66 (33%), Gaps = 18/66 (27%)
Query: 118 ALVEILTTLS--NFGIRTITQVYETAYKASLEKDIKGDTSGHFKRLLVSLS-QANRDESV 174
L EI+ L N + I VY KA+ R+LV +
Sbjct: 174 RLAEIIELLKSYNLEPKRIQFVYPKIGKAA-------------NRVLVEAIKGGKSG--L 218
Query: 175 EVDPQL 180
+V P L
Sbjct: 219 KVLPPL 224
>gnl|CDD|236998 PRK11840, PRK11840, bifunctional sulfur carrier protein/thiazole
synthase protein; Provisional.
Length = 326
Score = 29.3 bits (66), Expect = 4.7
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 14/59 (23%)
Query: 386 VKDGFLSIVQCVKDKSSYLARRLKDAMA------------GIGTDDKTLIRIIVTRSEI 432
VK+GF +V C D A+RL+DA A G+G + IR+IV + +
Sbjct: 194 VKEGFQVMVYCSDD--PIAAKRLEDAGAVAVMPLGAPIGSGLGIQNPYTIRLIVEGATV 250
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
0.315 0.133 0.368
Gapped
Lambda K H
0.267 0.0891 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,461,459
Number of extensions: 2481425
Number of successful extensions: 2755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2751
Number of HSP's successfully gapped: 46
Length of query: 470
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 370
Effective length of database: 6,502,202
Effective search space: 2405814740
Effective search space used: 2405814740
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: 41 (21.6 bits)
S2: 61 (27.0 bits)