RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10581
(90 letters)
>gnl|CDD|216263 pfam01044, Vinculin, Vinculin family.
Length = 850
Score = 47.8 bits (114), Expect = 6e-08
Identities = 19/47 (40%), Positives = 28/47 (59%)
Query: 22 APQLVTAARTLADHPSSKIAKENLEVFADMWQALVSDITTLCKEIMD 68
PQ++ AAR L +P SK A+EN+E F + W+ V +T +I D
Sbjct: 442 TPQVINAARILLHNPGSKAAQENMETFKNQWEDQVRRLTEAVDDITD 488
Score = 24.7 bits (54), Expect = 9.9
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 18 LKIYAPQLVTAARTLADHPSSKIAKENLEVFADMWQALVSDI 59
LK AP L+TA + HP + A+EN + A +++I
Sbjct: 194 LKKLAPILITAMKIFVRHPGVEEARENRDYTAKQMSDAMNEI 235
>gnl|CDD|172295 PRK13757, PRK13757, chloramphenicol acetyltransferase; Provisional.
Length = 219
Score = 27.5 bits (61), Expect = 0.83
Identities = 13/67 (19%), Positives = 21/67 (31%), Gaps = 4/67 (5%)
Query: 13 HAEYHLKIYAPQLVTAARTLADHPSSKIAKENLEVFADMWQALVSDITTLCKEI-MDKER 71
H E+ + + +LV HP + E E F+ +W D D
Sbjct: 70 HPEFRMAMKDGELVIWDSV---HPCYTVFHEQTETFSSLWSEYHDDFRQFLHIYSQDVAC 126
Query: 72 IPDKHTY 78
+ Y
Sbjct: 127 YGENLAY 133
>gnl|CDD|225094 COG2183, Tex, Transcriptional accessory protein [Transcription].
Length = 780
Score = 26.1 bits (58), Expect = 2.7
Identities = 18/76 (23%), Positives = 27/76 (35%), Gaps = 3/76 (3%)
Query: 1 MAGTETLQVATYHAE-YHL--KIYAPQLVTAARTLADHPSSKIAKENLEVFADMWQALVS 57
G L H E Y + KI A + + +K+ NLE FAD +
Sbjct: 562 PNGDNPLDATAVHPEAYKVVKKILADLGEADPDLIGNRERAKLKSLNLEEFADELDFGLP 621
Query: 58 DITTLCKEIMDKERIP 73
+ + E+ R P
Sbjct: 622 TLEDIILELEKPGRDP 637
>gnl|CDD|234315 TIGR03695, menH_SHCHC,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase. This protein catalyzes the formation of
SHCHC, or (1 R,6
R)-2-succinyl-6-hydroxy-2,
4-cyclohexadiene-1-carboxylate, by elmination of
pyruvate from
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate (SEPHCHC). Note that SHCHC synthase activity
previously was attributed to MenD, which in fact is
SEPHCHC synthase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 252
Score = 26.0 bits (58), Expect = 2.8
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 15/73 (20%)
Query: 9 VATYHA-EYHLKIYA-------PQLVT----AARTLADHP-SSKIAKENLEVFADMW--Q 53
+A Y+A +Y ++ P L T AAR D + + +E +E F D W Q
Sbjct: 84 IALYYALQYPERVQGLILESGSPGLATEEERAARRQNDEQLAQRFEQEGIEAFLDDWYQQ 143
Query: 54 ALVSDITTLCKEI 66
L + L E
Sbjct: 144 PLFASQKNLPPEQ 156
>gnl|CDD|236815 PRK10997, yieM, hypothetical protein; Provisional.
Length = 487
Score = 25.6 bits (57), Expect = 3.4
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 5/51 (9%)
Query: 22 APQLVTAARTLADHPSSKIAKENLEVFADMW-QALVSDITTLCKEIMDKER 71
A QLV A + +S A L F W +LV TTL ++++++ER
Sbjct: 110 ARQLVDANKGANSPITS--ALHTL--FLQRWRLSLVVQTTTLNQQLLEQER 156
>gnl|CDD|221485 pfam12246, MKT1_C, Temperature dependent protein affecting M2 dsRNA
replication. This domain family is found in eukaryotes,
and is typically between 231 and 255 amino acids in
length. There is a single completely conserved residue P
that may be functionally important. MKT1 is required for
maintenance of K2 toxin above 30 degrees C in strains
with the L-A-HN variant of the L-A double-stranded RNA
virus of Saccharomyces cerevisiae. MKT1 is a 93 kDa
protein with serine-rich regions and the retroviral
protease signature, DTG. This family is the C terminal
region of MKT1.
Length = 243
Score = 25.7 bits (57), Expect = 3.4
Identities = 11/35 (31%), Positives = 15/35 (42%)
Query: 36 PSSKIAKENLEVFADMWQALVSDITTLCKEIMDKE 70
PSS KE+L W AL + L +E +
Sbjct: 192 PSSTNLKEDLARAFQFWDALYKAVQELAEEDLISA 226
>gnl|CDD|149682 pfam08702, Fib_alpha, Fibrinogen alpha/beta chain family.
Fibrinogen is a protein involved in platelet aggregation
and is essential for the coagulation of blood. This
domain forms part of the central coiled coiled region of
the protein which is formed from two sets of three
non-identical chains (alpha, beta and gamma).
Length = 146
Score = 25.4 bits (56), Expect = 4.3
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 43 ENLEVFADMWQALVSDITTLCKEIMDKER 71
+ V ++ ++ S I L +I ER
Sbjct: 104 SQIRVLQEVLRSNRSKIQRLEVDIDQLER 132
>gnl|CDD|237522 PRK13822, PRK13822, conjugal transfer coupling protein TraG;
Provisional.
Length = 641
Score = 25.3 bits (56), Expect = 4.8
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 23 PQLVTAARTLADHPSSKIAKENLEVFADM 51
P L R + ++ S +EN+ VF +M
Sbjct: 368 PSLRARLRDIYENSESDFIRENVGVFVNM 396
>gnl|CDD|223394 COG0317, SpoT, Guanosine polyphosphate
pyrophosphohydrolases/synthetases [Signal transduction
mechanisms / Transcription].
Length = 701
Score = 25.3 bits (56), Expect = 5.7
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 30 RTLADHPSSK---IAKENLEVFADMWQAL 55
RTL + K IA+E L+++A + L
Sbjct: 150 RTLKNLDEEKRRRIARETLDIYAPLAHRL 178
>gnl|CDD|215002 smart01059, CAT, Chloramphenicol acetyltransferase.
Chloramphenicol acetyltransferase (CAT).catalyzes the
acetyl-CoA dependent acetylation of chloramphenicol
(Cm), an antibiotic which inhibits prokaryotic
peptidyltransferase activity. Acetylation of Cm by CAT
inactivates the antibiotic. A histidine residue, located
in the C-terminal section of the enzyme, plays a central
role in its catalytic mechanism. There is a second
family of CAT. evolutionary unrelated to the main family
described above. These CAT belong to the bacterial
hexapeptide-repeat containing-transferases family (see
). The crystal structure of the type III enzyme from
Escherichia coli with chloramphenicol bound has been
determined. CAT is a trimer of identical subunits
(monomer Mr 25,000) and the trimeric structure is
stabilised by a number of hydrogen bonds, some of which
result in the extension of a beta-sheet across the
subunit interface. Chloramphenicol binds in a deep
pocket located at the boundary between adjacent subunits
of the trimer, such that the majority of residues
forming the binding pocket belong to one subunit while
the catalytically essential histidine belongs to the
adjacent subunit. His195 is appropriately positioned to
act as a general base catalyst in the reaction, and the
required tautomeric stabilisation is provided by an
unusual interaction with a main-chain carbonyl oxygen.
Length = 202
Score = 24.9 bits (55), Expect = 5.8
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 35 HPSSKIAKENLEVFADMWQALVSDITTLCKE-IMDKERIPDKHTYM 79
HPS I + E F+ +W D + + D ER +
Sbjct: 80 HPSYTIFHKEDETFSFIWTPYDEDFKDFYQNALADIERYKNNPGLF 125
>gnl|CDD|225507 COG2959, HemX, Uncharacterized enzyme of heme biosynthesis
[Coenzyme metabolism].
Length = 391
Score = 25.2 bits (55), Expect = 6.0
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 14 AEYHLKIYAPQL-----VTAARTLADHPSSKIAKENLEVFADMWQALVSDITTL 62
A++ LK+ +L VT A L +++A N + +A+ +DI L
Sbjct: 136 ADFLLKLAGRKLVLDQDVTTAVALLKSADARLAAMNDPSLIAVRRAIANDIAAL 189
>gnl|CDD|239293 cd02995, PDI_a_PDI_a'_C, PDIa family, C-terminal TRX domain (a')
subfamily; composed of the C-terminal redox active a'
domains of PDI, ERp72, ERp57 (or ERp60) and EFP1. PDI,
ERp72 and ERp57 are endoplasmic reticulum (ER)-resident
eukaryotic proteins involved in oxidative protein
folding. They are oxidases, catalyzing the formation of
disulfide bonds of newly synthesized polypeptides in
the ER. They also exhibit reductase activity in acting
as isomerases to correct any non-native disulfide
bonds, as well as chaperone activity to prevent protein
aggregation and facilitate the folding of newly
synthesized proteins. PDI and ERp57 have the abb'a'
domain structure (where a and a' are redox active TRX
domains while b and b' are redox inactive TRX-like
domains). PDI also contains an acidic region (c domain)
after the a' domain that is absent in ERp57. ERp72 has
an additional a domain at the N-terminus (a"abb'a'
domain structure). ERp57 interacts with the lectin
chaperones, calnexin and calreticulin, and specifically
promotes the oxidative folding of glycoproteins, while
PDI shows a wider substrate specificity. ERp72
associates with several ER chaperones and folding
factors to form complexes in the ER that bind nascent
proteins. EFP1 is a binding partner protein of thyroid
oxidase, which is responsible for the generation of
hydrogen peroxide, a crucial substrate of
thyroperoxidase, which functions to iodinate
thyroglobulin and synthesize thyroid hormones.
Length = 104
Score = 24.1 bits (53), Expect = 9.5
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 12 YHAEY--HLKIYAPQLVTAARTLADHPSSKIAK 42
++A + H K AP A L + IAK
Sbjct: 25 FYAPWCGHCKALAPIYEELAEKLKGDDNVVIAK 57
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
0.319 0.131 0.391
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,438,255
Number of extensions: 343497
Number of successful extensions: 368
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 18
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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 (24.1 bits)