RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6919
(638 letters)
>gnl|CDD|223417 COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme
metabolism].
Length = 238
Score = 122 bits (309), Expect = 1e-31
Identities = 55/223 (24%), Positives = 87/223 (39%), Gaps = 12/223 (5%)
Query: 405 GLTVIPRQQTQGTGRSNNIWLSPPG-CAMFSMQLHIDLKSQLGKHLPLIQHIVAISIVLA 463
G V+ +QT G GR W SP G S+ L DL LP + + +++ A
Sbjct: 22 GTVVVAEEQTAGRGRRGRKWSSPKGGGLYMSLLLRPDLPPA---ELPSLSLVAGLAVAEA 78
Query: 464 VKSFNQDIDLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMAVCNIGVGMNLDNSQPT 523
++ F ID+ IKWPND+ +NG KL GI+V + V IG+ +N
Sbjct: 79 LRKFG--IDVRIKWPNDVLLNGK-KLAGILVEAVG-DENGLLAVVVGIGINVNNPPPDFE 134
Query: 524 TCLNSIFSANPSSPLLSYEQYFALVFNHLE----QLMEGDFDEIYDLYYKHWLHNNVNVT 579
S + E+ A + LE Q + F I + L V
Sbjct: 135 DIGQPATSLQEEGEEIDREELLAKLLKELEKYLRQFLREGFAPILARWRARSLSLGKEVR 194
Query: 580 VVSERGEAQQVKIIGIDDFGFLNVRSEEGYIFSVRPDGNTFDM 622
+ G GID+ G L + +++G + ++ +
Sbjct: 195 LTLGGGVIFGGIAKGIDEDGALLLETDDGEVQTIYSGEVSLRR 237
>gnl|CDD|232834 TIGR00121, birA_ligase, birA, biotin-[acetyl-CoA-carboxylase]
ligase region. This model represents the
biotin--acetyl-CoA-carboxylase ligase region of
biotin--acetyl-CoA-carboxylase ligase. In Escherichia
coli and some other species, this enzyme is part of a
bifunction protein BirA that includes a small,
N-terminal biotin operon repressor domain. Proteins
identified by this model should not be called
bifunctional unless they are also identified by
birA_repr_reg (TIGR00122). The protein name suggests
that this enzyme transfers biotin only to
acetyl-CoA-carboxylase but it also transfers the biotin
moiety to other proteins. The apparent orthologs among
the eukaryotes are larger proteins that contain a single
copy of this domain [Protein fate, Protein modification
and repair].
Length = 237
Score = 103 bits (259), Expect = 5e-25
Identities = 61/227 (26%), Positives = 91/227 (40%), Gaps = 19/227 (8%)
Query: 384 VIYSGVMSSSHNVLD---GPTLLHGLTVIPRQQTQGTGRSNNIWLSPPGCAMFSMQLHID 440
VI V+ S++ L G V+ QT G GR WLSP G FS+ L D
Sbjct: 2 VIVLDVIDSTNQYALELAKEGKLKGDLVVAEYQTAGRGRRGRKWLSPEGGLYFSLILRPD 61
Query: 441 LKSQLGKHLPLIQHIVAISIVLAVKSFNQDIDLGIKWPNDLYVNGNVKLGGIIVTSSILS 500
L L L + I+I +K + +KWPND+ + KLGGI+ +
Sbjct: 62 LPKSPAPGLTL---VAGIAIAEVLK--ELGDQVQVKWPNDILLKDK-KLGGILTELTG-K 114
Query: 501 TFESQMAVCNIGVGMNLDNSQPTTCLNSI-FS-ANPSSPLLSYEQYFALVFNHLEQ---- 554
+ V IG+G+N+ N +P L S + + L + + E+
Sbjct: 115 ENRADYVV--IGIGINVQNRKPAESLREQAISLSEEAGIDLDRGELIEGFLRNFEENLEW 172
Query: 555 LMEGDFDEIYDLYYKHWLHNNVNVTVVSERGEAQQVKIIGIDDFGFL 601
+ DEI + K H V++ + GE + GID G L
Sbjct: 173 FEQEGIDEILSKWEKLSAHIGREVSLTTGNGEIEG-IARGIDKDGAL 218
>gnl|CDD|178308 PLN02706, PLN02706, glucosamine 6-phosphate N-acetyltransferase.
Length = 150
Score = 100 bits (251), Expect = 6e-25
Identities = 42/96 (43%), Positives = 56/96 (58%), Gaps = 6/96 (6%)
Query: 12 FAERFHRMKASQDY-LVTVIEDTRTKQVIGTGSLILEQKFIHECALKGKIEEVVVDDTYR 70
F RF + + D L+ VIED + ++I TGS+ +E+KFI C G IE+VVVD R
Sbjct: 39 FEARFQELASLGDDHLICVIEDAASGRIIATGSVFVERKFIRNCGKVGHIEDVVVDSAAR 98
Query: 71 GKELGKLLIAVLVKLAKHFQCYKLTLDFS-----FY 101
GK LGK +I L + A+ CYK+ LD S FY
Sbjct: 99 GKGLGKKIIEALTEHARSAGCYKVILDCSEENKAFY 134
>gnl|CDD|169384 PRK08330, PRK08330, biotin--protein ligase; Provisional.
Length = 236
Score = 71.3 bits (175), Expect = 7e-14
Identities = 66/252 (26%), Positives = 108/252 (42%), Gaps = 44/252 (17%)
Query: 380 LGQLVIYSGVMSSSHNV--LDGPTLLHGLTVIPRQQTQGTGRSNNIWLSPPGCAMFSMQL 437
+G+ +IY + S++ P G ++ +QT G GR W SP G S+ L
Sbjct: 1 IGRNIIYFDEVDSTNEYAKRIAPDEEEGTVIVADRQTAGHGRKGRAWASPEGGLWMSVIL 60
Query: 438 HIDLKSQLGKHLPLIQHIVAISIVLAVKSFNQDIDLGIKWPNDLYVNGNVKLGGIIVTSS 497
+ +HLP + + A+++V ++ F I+ IKWPND+ VN K+ G++V
Sbjct: 61 KPKVSP---EHLPKLVFLGALAVVDTLREFG--IEGKIKWPNDVLVNYK-KIAGVLVEGK 114
Query: 498 ILSTFESQMAVCNIGVGMNLDNSQPTTCLNSIFSANPSSPLLSYEQYFALVFNHL-EQLM 556
V +G+G+N++N P +A +L E VF L E L
Sbjct: 115 ------GDFVV--LGIGLNVNNEIPD---ELRETATSMKEVLGREVPLIEVFKRLVENL- 162
Query: 557 EGDFDEIYDLYYKHWLHNNVNVTVVSERGEA---QQVKIIG------------IDDFGFL 601
D +YK +L + + ++VKIIG ID+FG L
Sbjct: 163 --------DRWYKLFLEGPGEILEEVKGRSMILGKRVKIIGDGEILVEGIAEDIDEFGAL 214
Query: 602 NVRSEEGYIFSV 613
+R ++G + V
Sbjct: 215 ILRLDDGTVKKV 226
>gnl|CDD|237010 PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase]
synthetase/biotin operon repressor; Provisional.
Length = 319
Score = 71.4 bits (176), Expect = 2e-13
Identities = 37/111 (33%), Positives = 55/111 (49%), Gaps = 17/111 (15%)
Query: 412 QQTQGTGRSNNIWLSPPGC-AMFSMQLHIDL-KSQLGKHLPLIQHIVAISIVLAVKSFNQ 469
QT G GR W SP G S+ ++ +Q L L+ V I+I A++
Sbjct: 110 YQTAGRGRRGRQWFSPFGGNLYLSLYWRLNQGPAQA-MGLSLV---VGIAIAEALRRLG- 164
Query: 470 DIDLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMA-VCN--IGVGMNL 517
ID+G+KWPND+Y+N KL GI+V S + + IG+G+N+
Sbjct: 165 AIDVGLKWPNDIYLND-RKLAGILVELSG------ETGDAAHVVIGIGINV 208
>gnl|CDD|140351 PTZ00330, PTZ00330, acetyltransferase; Provisional.
Length = 147
Score = 65.6 bits (160), Expect = 9e-13
Identities = 31/84 (36%), Positives = 49/84 (58%)
Query: 14 ERFHRMKASQDYLVTVIEDTRTKQVIGTGSLILEQKFIHECALKGKIEEVVVDDTYRGKE 73
E+ + + V + T++++GT SL +E KF G IE+VVVD +YRG+
Sbjct: 39 EQIAARRRLAGVVTRVFVHSPTQRIVGTASLFVEPKFTRGGKCVGHIEDVVVDPSYRGQG 98
Query: 74 LGKLLIAVLVKLAKHFQCYKLTLD 97
LG+ LI+ L ++A+ CYK+ LD
Sbjct: 99 LGRALISDLCEIARSSGCYKVILD 122
>gnl|CDD|217367 pfam03099, BPL_LplA_LipB, Biotin/lipoate A/B protein ligase family.
This family includes biotin protein ligase,
lipoate-protein ligase A and B. Biotin is covalently
attached at the active site of certain enzymes that
transfer carbon dioxide from bicarbonate to organic
acids to form cellular metabolites. Biotin protein
ligase (BPL) is the enzyme responsible for attaching
biotin to a specific lysine at the active site of biotin
enzymes. Each organism probably has only one BPL. Biotin
attachment is a two step reaction that results in the
formation of an amide linkage between the carboxyl group
of biotin and the epsilon-amino group of the modified
lysine. Lipoate-protein ligase A (LPLA) catalyzes the
formation of an amide linkage between lipoic acid and a
specific lysine residue in lipoate dependent enzymes.
The unusual biosynthesis pathway of lipoic acid is
mechanistically intertwined with attachment of the
cofactor.
Length = 124
Score = 63.6 bits (155), Expect = 3e-12
Identities = 34/106 (32%), Positives = 52/106 (49%), Gaps = 9/106 (8%)
Query: 413 QTQGTGRSNNIWLSPPGCAMFSMQLHIDLKSQLGKHLPLIQHIVAISIV--LAVKSFNQD 470
+ Q GR +W SP G +S+ L +LKS LP ++ ++++ L K+
Sbjct: 26 RRQTGGR--RVWHSPGGNLAYSLLLLPELKSFKPSDLPAYVLLLVLAVLEALGPKAGIPG 83
Query: 471 IDLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMAVCNIGVGMN 516
I + IKWPNDL VNG K+ GI+ T +G+G+N
Sbjct: 84 IWVRIKWPNDLLVNGK-KIAGILQEIRRGGTL--HHGT--LGIGIN 124
>gnl|CDD|236273 PRK08477, PRK08477, biotin--protein ligase; Provisional.
Length = 211
Score = 60.7 bits (148), Expect = 2e-10
Identities = 41/133 (30%), Positives = 54/133 (40%), Gaps = 29/133 (21%)
Query: 395 NVLDGPTLLHGLTVIPRQQTQGTGRSNNIWLSPPGCAMFSMQLHIDLKSQLGKHLPLIQH 454
L P + +QT G G N W G FS L +S L K LPL
Sbjct: 23 GELKAPFAIVAK-----EQTAGIGSRGNSWEGKKGNLFFSFALK---ESDLPKDLPL--- 71
Query: 455 IVAISIVLAV--KSFNQDIDLG----IKWPNDLYVNGNVKLGGIIVTSSILSTFESQMAV 508
+ SI K ++ LG +KWPNDLY++ K+GG+I V
Sbjct: 72 -QSSSIYFGFLLKEVLKE--LGSKVWLKWPNDLYLDDK-KIGGVITNKI------KNFIV 121
Query: 509 CNIGVGMNLDNSQ 521
C G+G+NL S
Sbjct: 122 C--GIGLNLKFSP 132
>gnl|CDD|235896 PRK06955, PRK06955, biotin--protein ligase; Provisional.
Length = 300
Score = 53.6 bits (129), Expect = 1e-07
Identities = 35/127 (27%), Positives = 63/127 (49%), Gaps = 17/127 (13%)
Query: 395 NVLDGPTLLHGLTVIPRQQTQGTGRSNNIWLSPPGCAM-FSMQLHIDLK-SQLGKHLPLI 452
+ L P + + +QT G GR W + PG A+ FS+ + + L L L
Sbjct: 60 DALPAPIVR-----VAYEQTAGRGRQGRPWFAQPGNALLFSVACVLPRPVAALAG-LSLA 113
Query: 453 QHIVAISIVLAVKSFNQDI--DLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMAVCN 510
V +++ A+ + + + +KWPNDL + G KL GI++ ++ +T ++ V
Sbjct: 114 ---VGVALAEALAALPAALGQRIALKWPNDLLIAGR-KLAGILI-ETVWATPDATAVV-- 166
Query: 511 IGVGMNL 517
IG+G+N+
Sbjct: 167 IGIGLNV 173
>gnl|CDD|140302 PTZ00276, PTZ00276, biotin/lipoate protein ligase; Provisional.
Length = 245
Score = 52.9 bits (127), Expect = 1e-07
Identities = 36/132 (27%), Positives = 56/132 (42%), Gaps = 18/132 (13%)
Query: 408 VIPRQQTQGTGRSNNIWLSPPGCAMFSMQLHIDLKSQLGKHLPLIQHIVAISIVLAVKSF 467
V+ QT G G W SP G F+ L I K + +P++ I ++ A+
Sbjct: 36 VLAESQTAGRGTGGRTWTSPKGNMYFT--LCIPQKGVPPELVPVLPLITGLACRAAIMEV 93
Query: 468 NQDIDLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMAVCNIGVGMNL-------DNS 520
+ KWPND+ G K+GG ++ ES+ IG+GMN+ D
Sbjct: 94 LHGAAVHTKWPNDIIYAGK-KIGGSLI--------ESEGEYLIIGIGMNIEVAPPVTDAG 144
Query: 521 QPTTCLNSIFSA 532
+ +T +N I
Sbjct: 145 RESTMVNEIAED 156
>gnl|CDD|183976 PRK13325, PRK13325, bifunctional biotin--[acetyl-CoA-carboxylase]
ligase/pantothenate kinase; Reviewed.
Length = 592
Score = 52.4 bits (125), Expect = 5e-07
Identities = 67/281 (23%), Positives = 107/281 (38%), Gaps = 34/281 (12%)
Query: 370 EYYRHLNTKKLGQLVIYSGVMSSSHNVLD----GPTLLHGLTVIPRQQTQGTGRSNNIWL 425
E R L + Q + SS+ +L+ P H + Q++G GR W
Sbjct: 71 EGLRELGERSGFQTALKHECASSNDEILELARIAPDKAHKTICVTHLQSKGRGRQGRKWS 130
Query: 426 SPPG-CAMFSMQLHIDL-KSQLGKHLPLIQHIVAISIVLAVKSFNQDIDLGIKWPNDLYV 483
G C MFS D + +LG P + A++ A+ + IKWPNDL V
Sbjct: 131 HRLGECLMFSFGWVFDRPQYELGSLSP----VAAVACRRALSRLG--LKTQIKWPNDLVV 184
Query: 484 NGNVKLGGIIVTSSILSTFESQMAVCNIGVGMNLDNS-QPTTCLNSIFS-----ANPSSP 537
G KLGGI++ + + T +AV IG+ L + + S+F N +
Sbjct: 185 -GRDKLGGILIET--VRTGGKTVAVVGIGINFVLPKEVENAASVQSLFQTASRRGNADAA 241
Query: 538 LLSYEQYFALVFNHLEQLMEGDFDEIYDLYYKHWLHNNVNVTVVSERGEAQQVKIIGIDD 597
+L E A + L Q F Y + V ++ + + + G+D
Sbjct: 242 VL-LETLLAELDAVLLQYARDGFAPFVAEYQAANRDHGKAVLLLRDGETVFEGTVKGVDG 300
Query: 598 FGFLNVRSEEGYI------FSVRPDGNTFDMLNGLIAPKQP 632
G L++ + EG S+R D + PK+
Sbjct: 301 QGVLHLETAEGKQTVVSGEISLRSDDRPVSV------PKRR 335
>gnl|CDD|216007 pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This
family contains proteins with N-acetyltransferase
functions such as Elp3-related proteins.
Length = 80
Score = 42.6 bits (101), Expect = 2e-05
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 37 QVIGTGSLILEQKFIHECALKGKIEEVVVDDTYRGKELGKLLIAVLVKLAKHFQCYKLTL 96
+++G SL + + + IE + VD YRGK +G L+ L + A+ ++ L
Sbjct: 6 ELVGFASLSIIDEEGNVAE----IEGLAVDPEYRGKGIGTALLEALEEYARELGLKRIEL 61
Query: 97 D 97
+
Sbjct: 62 E 62
>gnl|CDD|173926 cd04301, NAT_SF, N-Acyltransferase superfamily: Various enzymes
that characteristically catalyze the transfer of an
acyl group to a substrate. NAT (N-Acyltransferase) is
a large superfamily of enzymes that mostly catalyze the
transfer of an acyl group to a substrate and are
implicated in a variety of functions, ranging from
bacterial antibiotic resistance to circadian rhythms in
mammals. Members include GCN5-related
N-Acetyltransferases (GNAT) such as Aminoglycoside
N-acetyltransferases, Histone N-acetyltransferase (HAT)
enzymes, and Serotonin N-acetyltransferase, which
catalyze the transfer of an acetyl group to a
substrate. The kinetic mechanism of most GNATs involves
the ordered formation of a ternary complex: the
reaction begins with Acetyl Coenzyme A (AcCoA) binding,
followed by binding of substrate, then direct transfer
of the acetyl group from AcCoA to the substrate,
followed by product and subsequent CoA release. Other
family members include Arginine/ornithine
N-succinyltransferase, Myristoyl-CoA: protein
N-myristoyltransferase, and Acyl-homoserinelactone
synthase which have a similar catalytic mechanism but
differ in types of acyl groups transferred.
Leucyl/phenylalanyl-tRNA-protein transferase and FemXAB
nonribosomal peptidyltransferases which catalyze
similar peptidyltransferase reactions are also
included.
Length = 65
Score = 40.3 bits (95), Expect = 1e-04
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 37 QVIGTGSLILEQKFIHECALKGKIEEVVVDDTYRGKELGKLLIAVLVKLAKHFQCYKLTL 96
+++G SL + I ++ V YRGK +G L+ + A+ +L L
Sbjct: 9 EIVGFASLSPDGSGGDT----AYIGDLAVLPEYRGKGIGSALLEAAEEEARERGAKRLRL 64
Query: 97 D 97
+
Sbjct: 65 E 65
>gnl|CDD|235649 PRK05935, PRK05935, biotin--protein ligase; Provisional.
Length = 190
Score = 42.5 bits (100), Expect = 2e-04
Identities = 43/145 (29%), Positives = 60/145 (41%), Gaps = 42/145 (28%)
Query: 406 LTVIP-RQQTQGTGRSNNIWLSPPG------CAMFSMQLHIDLKSQLGKHLPLIQHIVAI 458
LTVI R+QT G G+ W S C F L+ID+ S L + +
Sbjct: 30 LTVISTREQTAGKGKFGKSWHSSDQDLLASFC-FFITVLNIDV-SLLFR--------LGT 79
Query: 459 SIVLAVKSFNQDIDLGI-----KWPNDLYVNGNVKLGGIIVTSSILSTFESQMAVCNI-G 512
V+ + DLGI KWPND+ V+G KL G++ T + + I G
Sbjct: 80 EAVMRLGE-----DLGITEAVIKWPNDVLVHGE-KLCGVLC-----ETIPVKGGLGVILG 128
Query: 513 VGMN--------LDNSQPTTCLNSI 529
+G+N L QP T L +
Sbjct: 129 IGVNGNTTKDELLGIDQPATSLQEL 153
>gnl|CDD|222185 pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain. This
domain catalyzes N-acetyltransferase reactions.
Length = 79
Score = 34.1 bits (79), Expect = 0.020
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 9/70 (12%)
Query: 23 QDYLVTVIEDTRTKQVIGTGSLILEQKFIHECALKGKIEEVVVDDTYRGKELGKLLIAVL 82
+ V D +++G L + + I V VD YRG+ G L+ L
Sbjct: 1 KKEHFLVAYDD--GEIVGFLRLRPIGEGAY-------IGGVAVDPEYRGQGYGSKLLRHL 51
Query: 83 VKLAKHFQCY 92
++ +
Sbjct: 52 LEELGEKPLF 61
>gnl|CDD|224168 COG1247, COG1247, Sortase and related acyltransferases [Cell
envelope biogenesis, outer membrane].
Length = 169
Score = 34.6 bits (80), Expect = 0.078
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 6/77 (7%)
Query: 12 FAERFHRMKASQDYLVTVIEDTRTKQVIGTGSLILEQKFIHECALKGKIEEVV-VDDTYR 70
A F + Y V V E +V+G S F A + +E + +D R
Sbjct: 40 RAAWFSG-RTRDGYPVVVAE-EEDGKVLGYASA---GPFRERPAYRHTVELSIYLDPAAR 94
Query: 71 GKELGKLLIAVLVKLAK 87
GK LGK L+ L+ A+
Sbjct: 95 GKGLGKKLLQALITEAR 111
>gnl|CDD|216943 pfam02237, BPL_C, Biotin protein ligase C terminal domain. The
function of this structural domain is unknown. It is
found to the C terminus of the biotin protein ligase
catalytic domain pfam01317.
Length = 47
Score = 29.8 bits (68), Expect = 0.35
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 575 NVNVTVVSERGEAQQVKIIGIDDFGFLNVRSEEGYIFSVRPDGNTFDM 622
V V + G+ + +GIDD G L + +++G + D+
Sbjct: 3 GKEVKVTTGGGKVE-GIAVGIDDDGRLLLETDDG-----IRIIISGDI 44
>gnl|CDD|233477 TIGR01575, rimI, ribosomal-protein-alanine acetyltransferase.
Members of this model belong to the GCN5-related
N-acetyltransferase (GNAT) superfamily. This model
covers prokarotes and the archaea. The seed contains a
characterized accession for Gram negative E. coli. An
untraceable characterized accession (PIR|S66013) for
Gram positive B. subtilis scores well (205.0) in the
full alignment. Characterized members are lacking in
the archaea. Noise cutoff (72.4) was set to exclude M.
loti paralog of rimI. Trusted cutoff (80.0) was set at
next highest scoring member in the mini-database
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 131
Score = 31.5 bits (72), Expect = 0.49
Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 15/76 (19%)
Query: 24 DYLVTVIEDTRTKQVIG--TGSLILEQKFIHECALKGKIEEVVVDDTYRGKELGKLLIAV 81
YL+ I +V+G ++L E I + V Y+G+ +G+ L+
Sbjct: 32 CYLLARIGG----KVVGYAGVQIVL-----DE----AHILNIAVKPEYQGQGIGRALLRE 78
Query: 82 LVKLAKHFQCYKLTLD 97
L+ AK ++ L+
Sbjct: 79 LIDEAKGRGVNEIFLE 94
>gnl|CDD|224167 COG1246, ArgA, N-acetylglutamate synthase and related
acetyltransferases [Amino acid transport and
metabolism].
Length = 153
Score = 31.1 bits (71), Expect = 0.94
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 13/63 (20%)
Query: 28 TVIEDTRTKQVIGTGSLILEQKFIHECALKGKIEE---VVVDDTYRGKELGKLLIAVLVK 84
T+IE R +VIG +L L+ + E + V YRG G+ L+ L+
Sbjct: 43 TIIE--RDGKVIGCAAL--------HPVLEEDLGELRSLAVHPDYRGSGRGERLLERLLA 92
Query: 85 LAK 87
A+
Sbjct: 93 DAR 95
>gnl|CDD|198375 cd07809, FGGY_D-XK_1, D-xylulose kinases, subgroup 1; members of
the FGGY family of carbohydrate kinases. This subgroup
is composed of D-xylulose kinases (XK, also known as
xylulokinase; EC 2.7.1.17) from bacteria and eukaryota.
They share high sequence similarity with Escherichia
coli xylulokinase (EcXK), which catalyzes the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. Some uncharacterized sequences are also
included in this subfamily. EcXK exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. The presence of Mg2+ or Mn2+ might be
required for catalytic activity. Members of this
subgroup belong to the FGGY family of carbohydrate
kinases.
Length = 487
Score = 31.1 bits (71), Expect = 2.1
Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 15/72 (20%)
Query: 567 YYKHWLHNNVNVTVVSERGEAQQVKIIGIDDFGFLNVRSEE---GYIFSVRPDGNTFDML 623
Y WL V+E G+A G+ +VR+ E + ++ P + D L
Sbjct: 161 YLNFWLTGRY----VTEYGDASGT--------GYFDVRTREWSEEVLDAIDPALDLADAL 208
Query: 624 NGLIAPKQPTGV 635
L++P +P G
Sbjct: 209 PTLLSPDEPAGT 220
>gnl|CDD|236088 PRK07757, PRK07757, acetyltransferase; Provisional.
Length = 152
Score = 29.8 bits (68), Expect = 2.6
Identities = 14/66 (21%), Positives = 31/66 (46%), Gaps = 12/66 (18%)
Query: 23 QDYLVTVIEDTRTKQVIGTGSLILEQKFIHECALK-GKIEEVVVDDTYRGKELGKLLIAV 81
+D+ V E +++G +L H +I + V + YRG+ +G++L+
Sbjct: 41 RDFYVAEEEG----EIVGCCAL-------HILWEDLAEIRSLAVSEDYRGQGIGRMLVEA 89
Query: 82 LVKLAK 87
++ A+
Sbjct: 90 CLEEAR 95
>gnl|CDD|185536 PTZ00275, PTZ00275, biotin-acetyl-CoA-carboxylase ligase;
Provisional.
Length = 285
Score = 30.6 bits (69), Expect = 2.7
Identities = 34/118 (28%), Positives = 54/118 (45%), Gaps = 18/118 (15%)
Query: 412 QQTQGTG------RSNNIWLSPPGCAMFSMQLHIDLKSQLGKHLPLIQH-IVAISIVLAV 464
+QT G G + IWLS G +F+ + + ++ + K L Q VAIS L
Sbjct: 57 EQTNGIGTRDTKKNQDRIWLSEKG-NLFTTFVFLWNRNDIEKVKYLAQTCTVAISKTL-- 113
Query: 465 KSFNQDIDLGIKWPNDLYVNGNVKLGGIIVTSSILSTFESQMA-----VCNIGVGMNL 517
+ F+ + IKW ND+ VN K+ G +V L F + + + IG+ + L
Sbjct: 114 EYFH--LVTQIKWINDVLVNYK-KIAGCLVHLYYLDDFPNLNSRYVCVMVGIGINVTL 168
>gnl|CDD|219062 pfam06496, DUF1097, Protein of unknown function (DUF1097). This
family consists of several bacterial putative membrane
proteins.
Length = 140
Score = 29.1 bits (66), Expect = 3.6
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 218 VLVSSQTSVSTLVGSSAIFI--FLMVIRSQVLKMVYTAGYLIG 258
+L S + L G I F+M ++++V + + G +G
Sbjct: 60 ILGSGLLGGNPLAGYILTGIVAFVMCLQAKVPLLSFIPGTFLG 102
>gnl|CDD|132762 cd07348, NR_LBD_NGFI-B, The ligand binding domain of Nurr1, a
member of conserved family of nuclear receptors. The
ligand binding domain of Nerve growth factor-induced-B
(NGFI-B): NGFI-B is a member of the nuclear#steroid
receptor superfamily. NGFI-B is classified as an orphan
receptor because no ligand has yet been identified.
NGFI-B is an early immediate gene product of the embryo
development that is rapidly produced in response to a
variety of cellular signals including nerve growth
factor. It is involved in T-cell-mediated apoptosis, as
well as neuronal differentiation and function. NGFI-B
regulates transcription by binding to a specific DNA
target upstream of its target genes and regulating the
rate of transcriptional initiation. Like other members
of the nuclear receptor (NR) superfamily of
ligand-activated transcription factors, NGFI-B has a
central well conserved DNA binding domain (DBD), a
variable N-terminal domain, a flexible hinge and a
C-terminal ligand binding domain (LBD).
Length = 238
Score = 29.8 bits (67), Expect = 4.0
Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 522 PTTCLNSIFSA----NPSSPLLSYEQYFALVFNHLEQLMEGDFDEIYDL 566
P + S+ A NPSS L Y ++ V E+ D + YDL
Sbjct: 1 PVNLIASLVRAHIDSNPSSAKLDYSKFQESVSPLFEKEDASDIQQFYDL 49
>gnl|CDD|223498 COG0421, SpeE, Spermidine synthase [Amino acid transport and
metabolism].
Length = 282
Score = 29.6 bits (67), Expect = 4.8
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 555 LMEGDFDEIYDLYYKHWLHNNVNVTVVSERGEAQQVKIIGIDDFGFL 601
+ + F E+YD + V + E+ E Q ++I +DFG +
Sbjct: 1 MADMWFTELYDPGLRLMFR--VERVLYEEKSEYQDIEIFESEDFGKV 45
>gnl|CDD|70841 pfam07390, P30, Mycoplasma P30 protein. This family consists of
several P30 proteins which seem to be specific to
Mycoplasma agalactiae. P30 is a 30-kDa immunodominant
antigen and is known to be a transmembrane protein.
Length = 266
Score = 29.4 bits (65), Expect = 6.1
Identities = 8/25 (32%), Positives = 17/25 (68%)
Query: 519 NSQPTTCLNSIFSANPSSPLLSYEQ 543
N++ + LN ++S NP++P+ E+
Sbjct: 84 NAKESPALNDLYSENPATPIFKNEK 108
>gnl|CDD|165120 PHA02753, PHA02753, hypothetical protein; Provisional.
Length = 298
Score = 29.1 bits (65), Expect = 7.0
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 222 SQTSVSTLVGSSAIFIFLMVIRSQVLKMVYTAGY 255
S+ L+ +AIFIF ++ + ++ AGY
Sbjct: 243 SKDIAEILLDLAAIFIFKFLVGYGIGPALWAAGY 276
>gnl|CDD|179345 PRK01885, greB, transcription elongation factor GreB; Reviewed.
Length = 157
Score = 28.3 bits (64), Expect = 7.1
Identities = 7/21 (33%), Positives = 14/21 (66%)
Query: 578 VTVVSERGEAQQVKIIGIDDF 598
V + +E GE ++ +I+G D+
Sbjct: 92 VEIENEDGEEKRFRIVGPDEI 112
>gnl|CDD|224885 COG1974, LexA, SOS-response transcriptional repressors
(RecA-mediated autopeptidases) [Transcription / Signal
transduction mechanisms].
Length = 201
Score = 28.8 bits (65), Expect = 8.0
Identities = 9/53 (16%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 421 NNIWLSPPGCAMFSMQLHIDLKSQLGKHLPLIQHIVAISIVLAVKSFNQDIDL 473
P A L +P++ + A + A++ + IDL
Sbjct: 53 KGYIRRDPTKARAIRILQ----LTEITGVPVLGRVAAGGPISAIEDIEEKIDL 101
>gnl|CDD|129824 TIGR00741, yfiA, ribosomal subunit interface protein. This model
includes a small protein encoded by one of two genes,
both downstream of the gene rpoN for sigma 54, whose
deletion leads to increased expression from sigma
54-dependent promoters. It also includes the N-terminal
half of a light-repressed protein LtrA of Synechococcus
PCC 7002 and the N-terminal region (after removal of the
transit peptide) of a larger plastid-specific ribosomal
protein of spinach. The member of this family from E.
coli is now recognized as a protein at the interace
between ribosomal large and small subunits, with about
1/3 as many copies per cell as the number of ribosomes
[Protein synthesis, Translation factors].
Length = 95
Score = 27.3 bits (61), Expect = 9.3
Identities = 8/62 (12%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 419 RSNNIWLSPPGCAMFSMQLHIDLK-SQLGKHLPLIQHIVAISIVLAVKSFNQDIDLGIKW 477
NN+ ++ +++ +++ K ++L ++ I+ + +VL+V+ ++ +
Sbjct: 6 TGNNVEITE------ALREYVEEKLARLERYF---TRIINVDVVLSVERNRFKVEATLYV 56
Query: 478 PN 479
Sbjct: 57 NG 58
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 0.134 0.387
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 31,519,032
Number of extensions: 3049325
Number of successful extensions: 2513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2498
Number of HSP's successfully gapped: 35
Length of query: 638
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 535
Effective length of database: 6,369,140
Effective search space: 3407489900
Effective search space used: 3407489900
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: 62 (27.5 bits)