RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9326
(125 letters)
>gnl|CDD|215222 PLN02397, PLN02397, aspartate transaminase.
Length = 423
Score = 161 bits (410), Expect = 2e-49
Identities = 52/102 (50%), Positives = 71/102 (69%)
Query: 21 ERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIE 80
ER+G L++V K VKSQ+ LI R MYSNPP HGA IV+ +L +P L+ +W + ++
Sbjct: 276 ERVGALSVVCKSADVAVRVKSQLKLIARPMYSNPPIHGASIVATILGDPELFSEWTKELK 335
Query: 81 TMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLN 122
M+ RI MR+ L + LE +PG W+HIT+QIGMFS+TGLN
Sbjct: 336 GMADRIISMRQKLYDALEARGSPGDWSHITKQIGMFSFTGLN 377
>gnl|CDD|240390 PTZ00376, PTZ00376, aspartate aminotransferase; Provisional.
Length = 404
Score = 156 bits (396), Expect = 2e-47
Identities = 51/104 (49%), Positives = 70/104 (67%)
Query: 21 ERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIE 80
ERIG L +V +K V SQ+ LI+R MYS+PP HGARI +L++P L +W ++
Sbjct: 258 ERIGALHIVCANKEEAANVLSQLKLIIRPMYSSPPIHGARIADRILSDPELRAEWLSELK 317
Query: 81 TMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLNRK 124
MSGRI+ MR+ L + L+ L +PG W HI QIGMFS+TGL ++
Sbjct: 318 EMSGRIQNMRQLLYDELKALGSPGDWEHIINQIGMFSFTGLTKE 361
>gnl|CDD|224365 COG1448, TyrB, Aspartate/tyrosine/aromatic aminotransferase [Amino
acid transport and metabolism].
Length = 396
Score = 137 bits (347), Expect = 3e-40
Identities = 47/102 (46%), Positives = 67/102 (65%)
Query: 21 ERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIE 80
ER+G L++V +D V SQ+ I+R YSNPP+HGA +V+ +LNNP L +W+Q +E
Sbjct: 253 ERVGALSVVAEDAEEADRVLSQLKAIIRTNYSNPPAHGAAVVATILNNPELRAEWEQELE 312
Query: 81 TMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLN 122
M RI +MR+ L + L+ L P ++ I Q GMFSYTGL+
Sbjct: 313 EMRQRILEMRQALVDALKALGAPRNFDFIISQRGMFSYTGLS 354
>gnl|CDD|181731 PRK09257, PRK09257, aromatic amino acid aminotransferase;
Provisional.
Length = 396
Score = 131 bits (331), Expect = 7e-38
Identities = 44/102 (43%), Positives = 62/102 (60%)
Query: 21 ERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIE 80
ER+G L++V +D V SQ+ +R YSNPP+HGA IV+ +LN+P L +W+ +E
Sbjct: 253 ERVGALSVVAEDAEEADRVLSQLKATIRTNYSNPPAHGAAIVATILNDPELRAEWEAELE 312
Query: 81 TMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLN 122
M RIK MR+ L E L+ ++ I Q GMFSY+GL
Sbjct: 313 EMRERIKAMRQLLVEALKAKGPSRDFDFIARQRGMFSYSGLT 354
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 67.7 bits (166), Expect = 2e-14
Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 16/104 (15%)
Query: 21 ERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIE 80
R+G + AV SQ+ + R YS +H + L++P L +E
Sbjct: 222 WRVGYILGN-------AAVISQLRKLARPFYS--STHLQAAAAAALSDPLLVASE---LE 269
Query: 81 TMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLNRK 124
M RIK+ R LR+ LE + + Q G F TGL+ +
Sbjct: 270 EMRQRIKERRDYLRDGLEAAG----LSVLPSQAGFFLLTGLDPE 309
>gnl|CDD|99734 cd00609, AAT_like, Aspartate aminotransferase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). Pyridoxal
phosphate combines with an alpha-amino acid to form a
compound called a Schiff base or aldimine intermediate,
which depending on the reaction, is the substrate in
four kinds of reactions (1) transamination (movement of
amino groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
The major groups in this CD corresponds to Aspartate
aminotransferase a, b and c, Tyrosine, Alanine,
Aromatic-amino-acid, Glutamine phenylpyruvate,
1-Aminocyclopropane-1-carboxylate synthase,
Histidinol-phosphate, gene products of malY and cobC,
Valine-pyruvate aminotransferase and Rhizopine
catabolism regulatory protein.
Length = 350
Score = 45.0 bits (107), Expect = 1e-06
Identities = 19/110 (17%), Positives = 41/110 (37%), Gaps = 16/110 (14%)
Query: 14 SYSIPTDERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYD 73
++ +P RIG L + + ++ ++ S P + + L++ +
Sbjct: 205 TFGLP-GLRIGYL--IAPP----EELLERLKKLLPYTTSGPSTLSQAAAAAALDDGEEH- 256
Query: 74 QWKQCIETMSGRIKQMRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLNR 123
+E + R ++ R L E L++L G + G F + L
Sbjct: 257 -----LEELRERYRRRRDALLEALKEL---GPLVVVKPSGGFFLWLDLPE 298
>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 = 31.1 bits (71), Expect = 0.12
Identities = 9/37 (24%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 65 VLNNPRL-YDQWKQCIETMSGRIKQ-MRRGLRERLEK 99
VL +P L Y +W++ + ++ R+ + L +E+
Sbjct: 64 VLRDPELPYLEWQEQMSALASRLPPKLEEELESLVER 100
>gnl|CDD|233279 TIGR01125, TIGR01125, ribosomal protein S12 methylthiotransferase
RimO. Members of this protein are the
methylthiotransferase RimO, which modifies a conserved
Asp residue in ribosomal protein S12. This clade of
radical SAM family proteins is closely related to the
tRNA modification bifunctional enzyme MiaB (see
TIGR01574), and it catalyzes the same two types of
reactions: a radical-mechanism sulfur insertion, and a
methylation of the inserted sulfur. This clade spans
alpha and gamma proteobacteria, cyano bacteria,
Deinococcus, Porphyromonas, Aquifex, Helicobacter,
Campylobacter, Thermotoga, Chlamydia, Streptococcus
coelicolor and Clostridium, but does not include most
other gram positive bacteria, archaea or eukaryotes
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 430
Score = 30.5 bits (69), Expect = 0.20
Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 47 VRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIETMSGRI-KQMRRG-----LRERLEKL 100
+R Y P ++ L+ P++ ++ S RI K MRR + +E+L
Sbjct: 220 IRMHYLYPDELTDDVIDLMAEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQLDFIERL 279
Query: 101 NT 102
Sbjct: 280 RE 281
>gnl|CDD|234016 TIGR02791, VirB5, P-type DNA transfer protein VirB5. The VirB5
protein is involved in the type IV DNA secretion systems
typified by the Agrobacterium Ti plasmid vir system
where it interacts with several other proteins essential
for proper pilus formation. VirB5 is homologous to the
IncN (N-type) conjugation system protein TraC as well as
the P-type protein TrbJ and the F-type protein TraE.
Length = 220
Score = 28.3 bits (63), Expect = 0.89
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 6/56 (10%)
Query: 54 PPSHGARIVSLVLNNPRLYDQWKQCIETMSGRIKQMRR------GLRERLEKLNTP 103
P + A I + + K E +S +I+Q ++ G R + LN P
Sbjct: 25 PVTDPASIANALAQAIEQMAALKTQYEQLSEQIEQYKQQYGSLTGNRGMGDLLNDP 80
>gnl|CDD|177698 PLN00068, PLN00068, photosystem II CP47 chlorophyll A apoprotein;
Provisional.
Length = 508
Score = 28.4 bits (63), Expect = 1.1
Identities = 28/103 (27%), Positives = 42/103 (40%), Gaps = 16/103 (15%)
Query: 22 RIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIET 81
R+GN+ VL S I AV ++ M+ +G+ + L P Y QW Q
Sbjct: 230 RMGNIETVLS--SSIAAVFFAAFVVAGTMW-----YGSATTPIELFGPTRY-QWDQ---- 277
Query: 82 MSGRIKQ--MRRGLRERLEKLNTPGTWNHITEQIGMFSYTGLN 122
G +Q RR E + W+ I E++ + Y G N
Sbjct: 278 --GYFQQEIYRRVSSGLAENQSLSEAWSKIPEKLAFYDYIGNN 318
>gnl|CDD|220516 pfam10004, DUF2247, Uncharacterized protein conserved in bacteria
(DUF2247). This domain, found in various hypothetical
bacterial proteins, has no known function.
Length = 161
Score = 27.4 bits (61), Expect = 1.8
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 46 IVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQCIETMSGR 85
VR M S PS + N R+ + W++ +E SG
Sbjct: 126 FVRYMPSKDPSAHSPED----NKERIINNWEEYLENESGE 161
>gnl|CDD|215539 PLN02998, PLN02998, beta-glucosidase.
Length = 497
Score = 27.4 bits (60), Expect = 2.1
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 4/90 (4%)
Query: 8 LYPNLESYS--IPTDERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLV 65
L PNL+ ++ I + + T + + ++ P QI L V+ Y NPP + +
Sbjct: 345 LKPNLQDFNTDIAVEMTLVGNTSIENEYANTPWSLQQILLYVKETYGNPPVYILENGQMT 404
Query: 66 LNNPRLYDQWKQCIETMSGRIKQMRRGLRE 95
++ L D + ++ +S IK + LR+
Sbjct: 405 PHSSSLVDTTR--VKYLSSYIKAVLHSLRK 432
>gnl|CDD|181512 PRK08637, PRK08637, hypothetical protein; Provisional.
Length = 388
Score = 27.2 bits (61), Expect = 2.4
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 22 RIGNLTLVLKDKSHIP---AVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRLYDQWKQC 78
R+G +T K S A++ ++ ++R+ SN P V LN+P + ++
Sbjct: 235 RVGFITFGTKAGSSQTVKEALEKKVKGLIRSNISNGPHPSQSAVLRALNSPEFDKEKQEK 294
Query: 79 IETMSGR 85
+ + R
Sbjct: 295 FQILKER 301
>gnl|CDD|223601 COG0527, LysC, Aspartokinases [Amino acid transport and
metabolism].
Length = 447
Score = 26.8 bits (60), Expect = 3.8
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 29 VLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPRL 71
VL ++ PA++S I L ++ + NP + G I + ++ +
Sbjct: 256 VLHPRAVEPAMRSGIPLRIKNTF-NPDAPGTLITAETESDEPV 297
>gnl|CDD|185040 PRK15082, PRK15082, glutathione ABC transporter permease GsiD;
Provisional.
Length = 301
Score = 26.2 bits (58), Expect = 5.4
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 7/40 (17%)
Query: 15 YSIPTDERI--GNLTLVLKDKSHIPAVKS----QITLIVR 48
+SIP R+ GN TLVLK +++I + +S T+++R
Sbjct: 172 FSIPAFARLVRGN-TLVLKQQTYIESARSIGASDWTILLR 210
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 26.1 bits (58), Expect = 6.5
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 1 KFSTKKFLYPNLESYSIPTDERI----GNLTLVLKDKSH 35
F +YP LE S+ ++RI G L V +K
Sbjct: 187 AFRKAGHVYPKLEPESVADEDRIAEGEGALGKVSGEKRS 225
>gnl|CDD|221188 pfam11725, AvrE, Pathogenicity factor. This family is secreted by
gram-negative Gammaproteobacteria such as Pseudomonas
syringae of tomato and the fire blight plant pathogen
Erwinia amylovora, amongst others. It is an essential
pathogenicity factor of approximately 198 kDa. Its
injection into the host-plant is dependent upon the
bacterial type III or Hrp secretion system. The family is
long and carries a number of predicted functional
regions, including an ERMS or endoplasmic reticulum
membrane retention signal at both the C- and the
N-termini, a leucine-zipper motif from residues 539-560,
and a nuclear localisation signal at 1358-1361. this
conserved AvrE-family of effectors is among the few that
are required for full virulence of many phytopathogenic
pseudomonads, erwinias and pantoeas.
Length = 1771
Score = 25.9 bits (57), Expect = 7.7
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 54 PPSHGARIVSLVLNNPRLYDQWKQCIET--MSGRIK-QMRRGLRERLEKLNTPGTWNHIT 110
PPS+ ARI L+ +P L KQ + R++ + + LR++++K GT
Sbjct: 1617 PPSNAARIAELMAQDPALKALIKQLQSSPGTLARVRLEPKDSLRDKIDKGILDGTITQ-D 1675
Query: 111 EQIGMFS 117
E G+
Sbjct: 1676 ELSGLLQ 1682
>gnl|CDD|240074 cd04723, HisA_HisF, Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase (HisA) and
the cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). The ProFAR isomerase catalyzes the
fourth step in histidine biosynthesis, an isomerisation
of the aminoaldose moiety of ProFAR to the aminoketose
of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene. The Imidazole glycerol phosphate synthase (IGPS)
catalyzes the fifth step of histidine biosynthesis, the
formation of the imidazole ring. IGPS converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 233
Score = 25.7 bits (57), Expect = 8.3
Identities = 4/31 (12%), Positives = 9/31 (29%)
Query: 78 CIETMSGRIKQMRRGLRERLEKLNTPGTWNH 108
I+ G + G R+ + +
Sbjct: 5 VIDLKDGVVVHGVGGDRDNYRPITSNLCSTS 35
>gnl|CDD|223694 COG0621, MiaB, 2-methylthioadenine synthetase [Translation,
ribosomal structure and biogenesis].
Length = 437
Score = 25.6 bits (57), Expect = 9.9
Identities = 24/104 (23%), Positives = 42/104 (40%), Gaps = 27/104 (25%)
Query: 11 NLESYSIPTDERIGNLTLVLKDKSHIPAVKSQITLIVRAMYSNPPSHGARIVSLVLNNPR 70
++ +Y NL +L++ S IP ++ +R S+P ++ + P+
Sbjct: 199 DVNAYGKDLGGGKPNLADLLRELSKIPGIE-----RIRFGSSHPLEFTDDLIEAIAETPK 253
Query: 71 LYD------QWKQCIETMSG--RI-KQMRRG-----LRERLEKL 100
+ Q SG RI K+M+RG E +EKL
Sbjct: 254 VCPHLHLPVQ--------SGSDRILKRMKRGYTVEEYLEIIEKL 289
>gnl|CDD|239192 cd02791, MopB_CT_Nitrate-R-NapA-like, Nitrate reductases, NapA
(Nitrate-R-NapA), NasA, and NarB catalyze the reduction
of nitrate to nitrite. Monomeric Nas is located in the
cytoplasm and participates in nitrogen assimilation.
Dimeric Nap is located in the periplasm and is coupled
to quinol oxidation via a membrane-anchored tetraheme
cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the
conserved molybdopterin_binding C-terminal (MopB_CT)
region present in many, but not all, MopB homologs.
Length = 122
Score = 24.8 bits (55), Expect = 9.9
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 64 LVLNNPRLYDQWKQCIETMSGRIKQMRRGLRE 95
L LN R+ DQW T +GR+ ++ + E
Sbjct: 5 LWLNTGRVRDQWHT--MTRTGRVPRLNAHVPE 34
>gnl|CDD|131097 TIGR02042, sir, ferredoxin-sulfite reductase. Distantly related to
the iron-sulfur hemoprotein of sulfite reductase (NADPH)
found in Proteobacteria and Eubacteria, sulfite
reductase (ferredoxin) is a cyanobacterial and plant
monomeric enzyme that also catalyzes the reduction of
sulfite to sulfide [Central intermediary metabolism,
Sulfur metabolism].
Length = 577
Score = 25.6 bits (56), Expect = 10.0
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 5/26 (19%)
Query: 83 SGRIK-----QMRRGLRERLEKLNTP 103
SGR+K Q+++ LRE +EK N P
Sbjct: 372 SGRVKDDGNWQLKKALREIVEKYNLP 397
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 0.135 0.403
Gapped
Lambda K H
0.267 0.0653 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,423,047
Number of extensions: 551091
Number of successful extensions: 588
Number of sequences better than 10.0: 1
Number of HSP's gapped: 587
Number of HSP's successfully gapped: 36
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
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: 53 (24.4 bits)