RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6266
(218 letters)
>gnl|CDD|215222 PLN02397, PLN02397, aspartate transaminase.
Length = 423
Score = 209 bits (534), Expect = 3e-66
Identities = 81/154 (52%), Positives = 102/154 (66%), Gaps = 3/154 (1%)
Query: 16 AYRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRMLLGGDASPPLRE 75
AYRTEE KP VL VVR+AE+ L S N EYLP+ GL F+ + ++ G D SP ++E
Sbjct: 57 AYRTEEGKPVVLNVVRKAEQRLL-AGSRNKEYLPIEGLAEFNKLSAKLAYGAD-SPAIKE 114
Query: 76 GRAFGVQTLSGTGALRVGAEFLHRILNYTTFYYSKPTWENHRLVFLNAGFTEAREYRYWN 135
R VQ LSGTG+LR+GAEFL R +T Y PTW NH +F +AG R YRY++
Sbjct: 115 NRVATVQCLSGTGSLRLGAEFLARFYPGSTIYIPNPTWGNHHNIFRDAGV-PVRTYRYYD 173
Query: 136 PEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPT 169
P+ R +DF G+ EDL APD S ++LHACAHNPT
Sbjct: 174 PKTRGLDFDGLLEDLKAAPDGSFVLLHACAHNPT 207
Score = 70.4 bits (173), Expect = 3e-14
Identities = 19/47 (40%), Positives = 32/47 (68%)
Query: 169 TAQQVAHMVDKHHVYLLRSGRINMCGLTTQNLDHVAQAIHDAVTSIP 215
+QV M ++H+Y+ R GRI+M GL+++N+ ++A AIH VT+
Sbjct: 377 NKEQVDRMTKEYHIYMTRDGRISMAGLSSKNVPYLADAIHAVVTNAS 423
>gnl|CDD|240390 PTZ00376, PTZ00376, aspartate aminotransferase; Provisional.
Length = 404
Score = 198 bits (506), Expect = 4e-62
Identities = 94/203 (46%), Positives = 124/203 (61%), Gaps = 16/203 (7%)
Query: 15 NAYRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRMLLGGDASPPLR 74
AYR E KP+VL VR+AEK +A + +L+ EYLP+ GL+SF AA ++L G +AS L
Sbjct: 37 GAYRDENGKPYVLESVRKAEKIIA-EKNLDKEYLPIEGLQSFIEAAQKLLFG-EASYALA 94
Query: 75 EGRAFGVQTLSGTGALRVGAEFLHRILNY-TTFYYSKPTWENHRLVFLNAGFTEAREYRY 133
E R VQ LSGTGALR+G EFL R L TT Y S PTW NH +F +AG +EYRY
Sbjct: 95 EKRIATVQALSGTGALRLGFEFLKRFLPAGTTVYVSNPTWPNHVNIFKSAGL-NVKEYRY 153
Query: 134 WNPEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPTA--------QQVAH-MVDKHHVYL 184
++P+ + +DF GM EDL AP+ SV++LHACAHNPT +++A M K+ +
Sbjct: 154 YDPKTKGLDFDGMLEDLRTAPNGSVVLLHACAHNPTGVDPTEEQWKEIADVMKRKNLIPF 213
Query: 185 LRSGRINMCGLTTQNLDHVAQAI 207
G + +LD A AI
Sbjct: 214 FDMAYQ---GFASGDLDKDAYAI 233
Score = 76.9 bits (190), Expect = 2e-16
Identities = 23/48 (47%), Positives = 39/48 (81%)
Query: 167 NPTAQQVAHMVDKHHVYLLRSGRINMCGLTTQNLDHVAQAIHDAVTSI 214
T +QV +++K+H+YLL +GRI++ GLT++N+D+VA+AIHD V ++
Sbjct: 357 GLTKEQVERLIEKYHIYLLDNGRISVAGLTSKNVDYVAEAIHDVVRNV 404
>gnl|CDD|224365 COG1448, TyrB, Aspartate/tyrosine/aromatic aminotransferase [Amino
acid transport and metabolism].
Length = 396
Score = 189 bits (483), Expect = 7e-59
Identities = 71/154 (46%), Positives = 89/154 (57%), Gaps = 3/154 (1%)
Query: 16 AYRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRMLLGGDASPPLRE 75
Y+ E+ K VL V++AEK L + YLP+ GL F A + LL G SP L E
Sbjct: 35 VYKDEDGKTPVLRAVKKAEKRLLEQE-KTKNYLPIEGLPEFLEAVQK-LLFGADSPALAE 92
Query: 76 GRAFGVQTLSGTGALRVGAEFLHRILNYTTFYYSKPTWENHRLVFLNAGFTEAREYRYWN 135
R VQTL GTGALRV A+FL R T + S PTW NH+ +F AG E Y Y++
Sbjct: 93 DRVATVQTLGGTGALRVAADFLARFFPDATVWISDPTWPNHKAIFEAAGL-EVETYPYYD 151
Query: 136 PEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPT 169
E + +DF GM DL AP+ SV++LH C HNPT
Sbjct: 152 AETKGLDFDGMLADLKTAPEGSVVLLHGCCHNPT 185
Score = 60.3 bits (147), Expect = 8e-11
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 169 TAQQVAHMVDKHHVYLLRSGRINMCGLTTQNLDHVAQAIHDAV 211
+ +QV + ++ +YL+ SGRIN+ GL T N+D+VA+AI +
Sbjct: 354 SPEQVDRLREEFGIYLVASGRINVAGLNTSNIDYVAKAIAAVL 396
>gnl|CDD|181731 PRK09257, PRK09257, aromatic amino acid aminotransferase;
Provisional.
Length = 396
Score = 167 bits (425), Expect = 3e-50
Identities = 65/153 (42%), Positives = 86/153 (56%), Gaps = 3/153 (1%)
Query: 17 YRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRMLLGGDASPPLREG 76
Y+ E+ + VL V++AE L ++ YLP+ GL ++ A +L G D SP L G
Sbjct: 36 YKDEQGRTPVLRAVKKAEARLLETET-TKNYLPIEGLAAYRQAVQELLFGAD-SPALAAG 93
Query: 77 RAFGVQTLSGTGALRVGAEFLHRILNYTTFYYSKPTWENHRLVFLNAGFTEAREYRYWNP 136
R VQT GTGALRVGA+FL R + S PTW NHR +F AG E + Y Y++
Sbjct: 94 RVATVQTPGGTGALRVGADFLKRAFPDAKVWVSDPTWPNHRAIFEAAGL-EVKTYPYYDA 152
Query: 137 EKRAVDFTGMYEDLVNAPDNSVIILHACAHNPT 169
+ +DF M DL AP V++LH C HNPT
Sbjct: 153 ATKGLDFDAMLADLSQAPAGDVVLLHGCCHNPT 185
Score = 59.8 bits (146), Expect = 1e-10
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 169 TAQQVAHMVDKHHVYLLRSGRINMCGLTTQNLDHVAQAI 207
T +QV + ++ VY + SGRIN+ GL N+D+VA+AI
Sbjct: 354 TPEQVDRLREEFGVYAVGSGRINVAGLNESNIDYVAEAI 392
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 96.2 bits (240), Expect = 1e-23
Identities = 48/179 (26%), Positives = 75/179 (41%), Gaps = 16/179 (8%)
Query: 15 NAYRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRMLLGGDASPPLR 74
N Y + LP V +AEK+ A + + Y P GL A + LG SP L+
Sbjct: 9 NEYLGDS---GTLPAVAKAEKDALAGGTR-NLYGPTDGLPELREALAK-FLGR--SPVLK 61
Query: 75 EGRAFGVQTLSGTGALRVGAEFLHRILNYTTFYYSKPTWENHRLVFLNAGFTEAREYRYW 134
R V SG GA FL R+ PT+ ++ +F AG E Y +
Sbjct: 62 LDREAAVVFGSGAGANIEALIFLLRLNPGDAILVPAPTYPSYIRIFRLAGG-EVVRYPLY 120
Query: 135 NPEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPTA--------QQVAHMVDKHHVYLL 185
+ +DF + L A + + ++LH HNPT +++ + +H++ LL
Sbjct: 121 SSNDFHLDFDALEAALKEATEGNKVVLHTSPHNPTGTVATLEELEKLLDLAKEHNILLL 179
Score = 35.4 bits (82), Expect = 0.015
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 8/40 (20%)
Query: 176 MVDKHHVYLLR--------SGRINMCGLTTQNLDHVAQAI 207
++++ VY+ RI + G T + L+ + +AI
Sbjct: 318 LLEEVGVYVTPGSSFGGPGWLRITVAGGTEEELEELLEAI 357
>gnl|CDD|99742 cd01494, AAT_I, Aspartate aminotransferase (AAT) superfamily (fold
type I) of pyridoxal phosphate (PLP)-dependent enzymes.
PLP 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.
Structure and sequence analysis has revealed that the
PLP dependent enzymes can be classified into four major
groups of different evolutionary origin: aspartate
aminotransferase superfamily (fold type I), tryptophan
synthase beta superfamily (fold type II), alanine
racemase superfamily (fold type III), and D-amino acid
superfamily (fold type IV) and Glycogen phophorylase
family (fold type V).
Length = 170
Score = 43.5 bits (103), Expect = 1e-05
Identities = 16/108 (14%), Positives = 31/108 (28%), Gaps = 3/108 (2%)
Query: 73 LREGRAFGVQTLSGTGALRVGAEFLHRILNYTTFYYSKPTWENHRLVFLNAGFTEAREYR 132
L+ G V SGTGA L + + V +
Sbjct: 13 LQPGNDKAVFVPSGTGANEAALLAL--LGPGDEVIVDANGHGSRYWVAAELAGAKPVPVP 70
Query: 133 YWNPEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPTAQQVAHMVDKH 180
+ +D + E+L P+ ++I++ + + K
Sbjct: 71 VDDAGYGGLDVAIL-EELKAKPNVALIVITPNTTSGGVLVPLKEIRKI 117
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 32.4 bits (74), Expect = 0.16
Identities = 28/85 (32%), Positives = 38/85 (44%), Gaps = 10/85 (11%)
Query: 117 RLVFLNAGFTEAREYRYWNP--EKRAVDFTGMYEDLVNAPDNSVIILHACAHNPTAQQVA 174
R+ +A E EYR WNP K A G ++ P + V+ L A A T V+
Sbjct: 93 RISVEDAEGGEKIEYRVWNPFRSKLAAAIIGGVANIPIKPGSKVLYLGA-ASGTTVSHVS 151
Query: 175 HMV-DKHHVYLL----RSGR--INM 192
+V + VY + RSGR NM
Sbjct: 152 DLVGPEGVVYAVEFSHRSGRDLTNM 176
>gnl|CDD|183198 PRK11560, PRK11560, phosphoethanolamine transferase; Provisional.
Length = 558
Score = 31.9 bits (73), Expect = 0.26
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 129 REYRYWNPEKRAVDFTGMYEDLVNAPDNSV 158
R + + PE VD L+N+ DNSV
Sbjct: 409 RSFARYQPECIGVDSGCSKAQLINSYDNSV 438
>gnl|CDD|183434 PRK12318, PRK12318, methionine aminopeptidase; Provisional.
Length = 291
Score = 29.4 bits (66), Expect = 1.3
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 13/84 (15%)
Query: 135 NPEKRAVDFTGMYEDLVNAPDNSVIILHACAHNPTAQQVAHMVDKHHVYLLRSGRINMCG 194
+ E + Y+ ++ P+ I AC Q A ++D L + + G
Sbjct: 27 SLENLKQLYASQYDIIIKTPEQIEKIRKAC------QVTARILDA----LCEAAKE---G 73
Query: 195 LTTQNLDHVAQAIHDAVTSIPSHL 218
+TT LD +++ +H +IP+ L
Sbjct: 74 VTTNELDELSRELHKEYNAIPAPL 97
>gnl|CDD|237797 PRK14713, PRK14713, multifunctional hydroxymethylpyrimidine
phosphokinase/4-amino-5-aminomethyl-2-methylpyrimidine
hydrolase; Provisional.
Length = 530
Score = 28.2 bits (63), Expect = 3.5
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 55 SFSSA-ATRMLLGGDASPPLREGRAFGVQTLSGTGALRVGA 94
S SSA ATR+ GGD + LR A+ ++ AL+VG
Sbjct: 240 SLSSALATRLGRGGDWAAALRWATAWLHGAIAAGAALQVGT 280
>gnl|CDD|115050 pfam06368, Met_asp_mut_E, Methylaspartate mutase E chain (MutE).
This family consists of several methylaspartate mutase E
chain proteins (EC:5.4.99.1). Glutamate mutase catalyzes
the first step in the fermentation of glutamate by
Clostridium tetanomorphum. This is an unusual
isomerisation in which L-glutamate is converted to
threo-beta-methyl L-aspartate.
Length = 441
Score = 28.2 bits (63), Expect = 3.6
Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 43 LNHEYLPVLGLES-FSSAATRMLLGGDASPPLREGRAFGVQTLSGTGALRVGAE 95
L EYL G + +GG P E +A+G+ + S T A G
Sbjct: 230 LAKEYLGAYGFNDVDVTTVFHQWMGGF---PRDESKAYGLISESTTIAALSGTT 280
>gnl|CDD|217073 pfam02504, FA_synthesis, Fatty acid synthesis protein. The plsX
gene is part of the bacterial fab gene cluster which
encodes several key fatty acid biosynthetic enzymes. The
exact function of the plsX protein in fatty acid
synthesis is unknown.
Length = 322
Score = 28.1 bits (63), Expect = 3.9
Identities = 16/65 (24%), Positives = 22/65 (33%), Gaps = 6/65 (9%)
Query: 63 MLLGGDASPPLREGRAFGVQTLSGTGALRVGAEFLHRILNYTT---FYYSKPTWENHRLV 119
M + D ++EG A + TGAL A + T PT V
Sbjct: 81 MAVAID---LVKEGEADAAVSAGNTGALMALAMLRLGRIKGITRPALGTELPTVNGKFTV 137
Query: 120 FLNAG 124
L+ G
Sbjct: 138 LLDVG 142
>gnl|CDD|237072 PRK12355, PRK12355, conjugal transfer mating pair stabilization
protein TraN; Reviewed.
Length = 558
Score = 27.8 bits (62), Expect = 4.5
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 140 AVDFTGMYEDLVNA---PDNSVI 159
+DF+ YEDL+N PD+ I
Sbjct: 528 RIDFSEFYEDLMNNQKLPDSGEI 550
>gnl|CDD|129473 TIGR00377, ant_ant_sig, anti-anti-sigma factor. This superfamily
includes small (105-125 residue) proteins related to
SpoIIAA of Bacillus subtilis, an anti-anti-sigma
factor. SpoIIAA can bind to and inhibit the anti-sigma
F factor SpoIIAB. Also, it can be phosphorylated by
SpoIIAB on a Ser residue at position 59 of the seed
alignment. A similar arrangement is inferred for RsbV,
an anti-anti-sigma factor for sigma B. This Ser is
fairly well conserved within a motif resembling
MXS[STA]G[VIL]X[VIL][VILF] among homologous known or
predicted anti-anti-sigma factors. Regions similar to
SpoIIAA and apparently homologous, but differing
considerably near the phosphorylated Ser of SpoIIAA,
appear in a single copy in several longer proteins
[Regulatory functions, Protein interactions].
Length = 108
Score = 26.4 bits (59), Expect = 5.4
Identities = 14/62 (22%), Positives = 21/62 (33%), Gaps = 14/62 (22%)
Query: 5 SGEIHCCEIRNAYRTEECKPWVLPVVRQAEKELAADDSLNHEYLPVLGLESFSSAATRML 64
SGE+ +A+ + V P A L + LE S+ +L
Sbjct: 19 SGEL------DAHTAPLLREKVTP--------AAERTGPRPIVLDLEDLEFMDSSGLGVL 64
Query: 65 LG 66
LG
Sbjct: 65 LG 66
>gnl|CDD|215606 PLN03154, PLN03154, putative allyl alcohol dehydrogenase;
Provisional.
Length = 348
Score = 27.5 bits (61), Expect = 5.5
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 188 GRINMCGLTTQNLDHVAQAIHDAVTSIPSHL 218
GRI +CG+ + N +Q IH+ I +
Sbjct: 252 GRIAVCGMVSLNSLSASQGIHNLYNLISKRI 282
>gnl|CDD|163429 TIGR03717, R_switched_YjbE, integral membrane protein, YjbE family.
Rfam model RF00080 describes a structured RNA element
called the yybP-ykoY leader, or SraF, which may precede
one or several genes in a genome. Members of this highly
hydrophobic protein family commonly are preceded by a
yybP-ykoY leader, which may serve as a riboswitch. From
the larger group of TerC homologs (pfam03741), this
subfamily contains protein YjbE from Bacillus subtilis.
A transport function is proposed.
Length = 176
Score = 26.7 bits (60), Expect = 7.3
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 149 DLVNAPDNSVIILHACAHNPTAQQ 172
DLV DN+V+I A + P Q+
Sbjct: 9 DLVLGGDNAVVIALAARNLPAHQR 32
>gnl|CDD|238149 cd00245, Glm_e, Coenzyme B12-dependent glutamate mutase epsilon
subunit-like family; contains proteins similar to
Clostridium cochlearium glutamate mutase (Glm) and
Streptomyces tendae Tu901 NikV. Glm catalyzes a
carbon-skeleton rearrangement of L-glutamate to
L-threo-3-methylaspartate. The first step in the
catalysis is a homolytic cleavage of the Co-C bond of
the coenzyme B12 cofactor to generate a 5'-deoxyadenosyl
radical. This radical then initiates the rearrangement
reaction. C. cochlearium Glm is a sigma2epsilon2
heterotetramer. Glm plays a role in glutamate
fermentation in Clostridium sp. and in members of the
family Enterobacteriaceae, and in the synthesis of the
lipopeptide antibiotic friulimicin in Actinoplanes
friuliensis. S. tendae Tu901 glutamate mutase-like
proteins NikU and NIkV participate in the synthesis of
the peptidyl nucleoside antibiotic nikkomycin. NikU and
NikV proteins have sequence similarity to Clostridium
Glm sigma and epsilon components respectively, and may
catalyze the rearrangement of 2-oxoglutaric acid to
2-keto-3-methylsuccinic acid during nikkomycin
synthesis.
Length = 428
Score = 27.3 bits (61), Expect = 7.3
Identities = 20/65 (30%), Positives = 24/65 (36%), Gaps = 4/65 (6%)
Query: 32 QAEKELAADDSLNHEYLPVLGLESFS-SAATRMLLGGDASPPLREGRAFGVQTLSGTGAL 90
Q L A L EYLP G + +GG P E AFG+ + T A
Sbjct: 215 QDIAALRALRELAKEYLPKYGYKDVDIHTVFHQWMGG---FPRDESGAFGLIGYAATIAA 271
Query: 91 RVGAE 95
GA
Sbjct: 272 LSGAT 276
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
0.321 0.134 0.416
Gapped
Lambda K H
0.267 0.0758 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,267,454
Number of extensions: 1056894
Number of successful extensions: 876
Number of sequences better than 10.0: 1
Number of HSP's gapped: 860
Number of HSP's successfully gapped: 27
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
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 (21.9 bits)
S2: 57 (25.7 bits)