RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14287
(290 letters)
>gnl|CDD|237108 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 39.0 bits (91), Expect = 0.003
Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 13/74 (17%)
Query: 76 VLGSSVRSHVSQSVNFYQIGGNSLNSIYTITKLREA-GHQVSVADFVSAQTLGRYTG--- 131
VLG V + NF+++GG+SL ++ ++++R++ G ++S+ D +SA T+ G
Sbjct: 3617 VLG---VEQVGVTDNFFELGGDSLLALQVLSRIRQSLGLKLSLRDLMSAPTIAELAGYSP 3673
Query: 132 ------SLLLSLQR 139
+LLL L R
Sbjct: 3674 LGDVPVNLLLDLNR 3687
Score = 33.2 bits (76), Expect = 0.21
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 19/74 (25%)
Query: 90 NFYQIGGNSLNSIYTITKLREAGHQVSVADFVSAQTL------------------GRYTG 131
NF+++GG+S+ SI +++ R+AG + + D QT+ G TG
Sbjct: 2120 NFFELGGDSIISIQVVSRARQAGIRFTPKDLFQHQTVQSLAAVAQEGDGTVSIDQGPVTG 2179
Query: 132 SL-LLSLQRFWMTD 144
L LL +Q+ + D
Sbjct: 2180 DLPLLPIQQMFFAD 2193
Score = 28.2 bits (63), Expect = 7.7
Identities = 14/45 (31%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 90 NFYQIGGNSLNSIYTITKLREA-GHQVSVADFVSAQTLGRYTGSL 133
NF+++GG+SL + I+++R+ G QV + QTL + ++
Sbjct: 1053 NFFELGGHSLLATQVISRVRQRLGIQVPLRTLFEHQTLAGFAQAV 1097
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 36.5 bits (84), Expect = 0.017
Identities = 12/38 (31%), Positives = 25/38 (65%)
Query: 90 NFYQIGGNSLNSIYTITKLREAGHQVSVADFVSAQTLG 127
NF+++GG+S+ S+ +++ R+AG + + D QT+
Sbjct: 3579 NFFELGGDSIISLQVVSRARQAGIRFTPKDLFQHQTIQ 3616
Score = 34.5 bits (79), Expect = 0.081
Identities = 15/38 (39%), Positives = 26/38 (68%)
Query: 90 NFYQIGGNSLNSIYTITKLREAGHQVSVADFVSAQTLG 127
NF+++GG+S+ SI +++ R+AG Q+S D QT+
Sbjct: 1041 NFFELGGDSIVSIQVVSRARQAGIQLSPRDLFQHQTIR 1078
Score = 29.2 bits (65), Expect = 3.3
Identities = 11/45 (24%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 90 NFYQIGGNSLNSIYTITKLR-EAGHQVSVADFVSAQTLGRYTGSL 133
NF+++GG+SL +I ++++ E G ++ + + TL +
Sbjct: 5095 NFFELGGHSLLAIQVTSRIQLELGLELPLRELFQTPTLAAFVELA 5139
>gnl|CDD|215989 pfam00550, PP-binding, Phosphopantetheine attachment site. A
4'-phosphopantetheine prosthetic group is attached
through a serine. This prosthetic group acts as a a
'swinging arm' for the attachment of activated fatty
acid and amino-acid groups. This domain forms a four
helix bundle. This family includes members not included
in Prosite. The inclusion of these members is supported
by sequence analysis and functional evidence. The
related domain of Vibrio anguillarum angR has the
attachment serine replaced by an alanine.
Length = 66
Score = 31.4 bits (72), Expect = 0.070
Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 67 KVLFDTVVQVLGSSVRSHVSQSVNFYQIGGNSLNSIYTITKLREA-GHQVSVADFVSAQT 125
+ L + V +VLG + + + + +G +SL ++ + +L E G ++ +D T
Sbjct: 1 ERLREIVAEVLG--IPDEIDPDDDLFDLGLDSLLAVELLARLEEEFGVEIPPSDLFEHPT 58
Query: 126 LG 127
LG
Sbjct: 59 LG 60
>gnl|CDD|237208 PRK12795, fliM, flagellar motor switch protein FliM; Reviewed.
Length = 388
Score = 32.7 bits (75), Expect = 0.18
Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 15/69 (21%)
Query: 45 ADNSTAVQIDYTGIGS-DRLPVAKVLFDTVVQVLGSSVRSHVS----------QSVNFYQ 93
D S I + + S +RLP+ +++FD +V++L +S+R+ S SV F
Sbjct: 77 DDRSGIRAIIDSALVSYERLPMLEIVFDRLVRLLTTSLRNFTSDNVEVSLDNITSVRF-- 134
Query: 94 IGGNSLNSI 102
G+ LNSI
Sbjct: 135 --GDYLNSI 141
>gnl|CDD|235564 PRK05691, PRK05691, peptide synthase; Validated.
Length = 4334
Score = 32.4 bits (74), Expect = 0.29
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 90 NFYQIGGNSLNSIYTITKLREAGHQVSVADFVSAQTL 126
NF+++GG+S+ SI +++ R+ G S D QT+
Sbjct: 2732 NFFELGGDSILSIQVVSRARQLGIHFSPRDLFQHQTV 2768
>gnl|CDD|129743 TIGR00658, orni_carb_tr, ornithine carbamoyltransferase. This
family of ornithine carbamoyltransferases (OTCase) is in
a superfamily with the related enzyme aspartate
carbamoyltransferase. Most known examples are anabolic,
playing a role in arginine biosynthesis, but some are
catabolic. Most OTCases are homotrimers, but the
homotrimers are organized into dodecamers built from
four trimers in at least two species; the catabolic
OTCase of Pseudomonas aeruginosa is allosterically
regulated, while OTCase of the extreme thermophile
Pyrococcus furiosus shows both allostery and thermophily
[Amino acid biosynthesis, Glutamate family].
Length = 304
Score = 29.2 bits (66), Expect = 2.3
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 79 SSVRSHVSQSVNFYQIGGNSLNSIYTITKLREAGHQVSVADFVSAQTLGRY 129
S R+ VS V YQ+GG+ L Y + G S+ D +A+ L RY
Sbjct: 49 PSTRTRVSFEVAAYQLGGHPL---YLNPNDLQLGRGESIKD--TARVLSRY 94
>gnl|CDD|220460 pfam09894, DUF2121, Uncharacterized protein conserved in archaea
(DUF2121). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 194
Score = 28.8 bits (65), Expect = 2.6
Identities = 7/41 (17%), Positives = 19/41 (46%)
Query: 153 GRKICLLEIGDIIDLILSNKAHPGISLSNQYECVFLTHAHK 193
+K+ L +I DI + I+ + ++S +++ +
Sbjct: 142 KKKMSLKDIRDIFEKIMEEVSSETATVSKEFDLYIVKPKED 182
>gnl|CDD|240500 cd13742, SPRY_PRY_TRIM72, PRY/SPRY domain in tripartite
motif-binding protein 72 (TRIM72). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of TRIM72. Muscle-specific TRIM72 (also
known as Mitsugumin 53 or MG53) has been shown to
perform a critical function in membrane repair
following acute muscle injury by nucleating the
assembly of the repair machinery at injury sites. It is
expressed specifically in skeletal muscle and heart,
and tethered to the plasma membrane and cytoplasmic
vesicles via its interaction with phosphatidylserine.
TRIM72 interacts with dysferlin, a sarcolemmal protein
whose deficiency causes Miyoshi myopathy (MM) and limb
girdle muscular dystrophy type 2B (LGMD2B); this
coordination plays an important role in the repair of
sarcolemma damage.
Length = 192
Score = 28.7 bits (64), Expect = 2.9
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 5/36 (13%)
Query: 5 NKEDKSSALVGFGGIKSQQEEGEE-WTQTAQDRPRW 39
+ DK++ +V EGE W D+PRW
Sbjct: 49 RRFDKANCVVS----HQSFSEGEHYWEVDVGDKPRW 80
>gnl|CDD|223684 COG0611, ThiL, Thiamine monophosphate kinase [Coenzyme metabolism].
Length = 317
Score = 28.8 bits (65), Expect = 3.6
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 1/55 (1%)
Query: 163 DIIDLILSNKAHPGISLSNQYECVFLTHAHKQDLFQIITDSFYEKADLERWIIPE 217
++I + + L + + Q L + TD E + PE
Sbjct: 7 ELIKRYFKRRQREDVVLGIGDDAALVDAPEGQRLV-VTTDMLVEGTHFPPDMTPE 60
>gnl|CDD|187719 cd08650, FMT_core_HypX_N, HypX protein, N-terminal hydrolase
domain. The family represents the N-terminal hydrolase
domain of HypX protein. HypX is involved in the
maturation process of active [NiFe] hydrogenase. [NiFe]
hydrogenases function in H2 metabolism in a variety of
microorganisms, enabling them to use H2 as a source of
reducing equivalent under aerobic and anaerobic
conditions. [NiFe] hydrogenases consist of a large and a
small subunit. The large subunit contains [NiFe] active
site, which is synthesized as a precursor without the
[NiFe] active site. This precursor then undergoes a
complex post-translational maturation process that
requires the presence of a number of accessory proteins.
HypX has been shown to be involved in this maturation
process and have been proposed to participate in the
generation and transport of the CO and CN ligands.
However, HypX is not present in all
hydrogen-metabolizing bacteria. Furthermore, hypX
deletion mutants have a reduced but detectable level of
hydrogenase activity. Thus, HypX might not be a
determining factor in the matur ation process. Members
of this group have an N-terminal formyl transferase
domain and a C-terminal enoyl-CoA hydratase/isomerase
domain.
Length = 151
Score = 27.2 bits (61), Expect = 6.2
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 97 NSLNSIYTITKLREAGHQVSVADFVSAQTL 126
NSL + +LRE GH+VSV +S +
Sbjct: 11 NSL-TQRAFLELRERGHEVSVEYALSDDEM 39
>gnl|CDD|220125 pfam09140, MipZ, ATPase MipZ. MipZ is an ATPase that forms a
complex with the chromosome partitioning protein ParB
near the chromosomal origin of replication. It is
responsible for the temporal and spatial regulation of
FtsZ ring formation.
Length = 262
Score = 27.3 bits (61), Expect = 8.3
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 96 GNSLNSIYTITKLREAGHQVSVADFVSAQ-TLGRYTGSLLLSLQR 139
G S +++ L G +V+ D Q TL RY + +R
Sbjct: 13 GKSTTAVHVAVALLYLGARVATIDLDLRQRTLTRYFENRAAWAER 57
>gnl|CDD|131352 TIGR02299, HpaE, 5-carboxymethyl-2-hydroxymuconate semialdehyde
dehydrogenase. This model represents the dehydrogenase
responsible for the conversion of
5-carboxymethyl-2-hydroxymuconate semialdehyde to
5-carboxymethyl-2-hydroxymuconate (a tricarboxylic
acid). This is the step in the degradation of
4-hydroxyphenylacetic acid via homoprotocatechuate
following the oxidative opening of the aromatic ring.
Length = 488
Score = 27.5 bits (61), Expect = 9.6
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 210 LERW-IIPELKRDCYVELLEQIWEPLVAARLSFIVKSREVGEG 251
L W I P L V L W PL AARL+ I K + +G
Sbjct: 151 LSTWKIAPALAFGNTVVLKPAEWSPLTAARLAEIAKEAGLPDG 193
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 0.137 0.400
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,674,479
Number of extensions: 1403407
Number of successful extensions: 1236
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1236
Number of HSP's successfully gapped: 21
Length of query: 290
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 194
Effective length of database: 6,679,618
Effective search space: 1295845892
Effective search space used: 1295845892
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: 58 (26.0 bits)