RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13489
(172 letters)
>gnl|CDD|189018 cd09839, M1_TAF2, TATA binding protein (TBP) associated factor 2.
This family includes TATA binding protein (TBP)
associated factor 2 (TAF2, TBP-associated factor
TAFII150, transcription initiation factor TFIID subunit
2, RNA polymerase II TBP-associated factor subunit B),
and has homology to the aminopeptidase N (APN)
subfamily, belonging to the M1 gluzincin family. TAF2 is
part of the TFIID multidomain subunit complex essential
for transcription of most protein-encoded genes by RNA
polymerase II. TAF2 is known to interact with the
initiator element (Inr) found at the transcription start
site of many genes, thus possibly playing a key role in
promoter binding as well as start-site selection. Image
analysis has shown TAF2 to form a complex with TAF1 and
TBP, inferring its role in promoter recognition.
Peptidases in the M1 family bind a single catalytic zinc
ion which is tetrahedrally co-ordinated by three amino
acid ligands and a water molecule that forms the
nucleophile on activation during catalysis. TAF2,
however, does not seem to contain any of the active site
residues.
Length = 507
Score = 45.4 bits (108), Expect = 4e-06
Identities = 18/30 (60%), Positives = 21/30 (70%)
Query: 2 SPQYLDIMRKKAHLMIRMLEHRIGFELILQ 31
SP Y + M KAHL++RMLE RIG E LQ
Sbjct: 408 SPLYGEFMALKAHLVLRMLERRIGKESFLQ 437
>gnl|CDD|222285 pfam13646, HEAT_2, HEAT repeats. This family includes multiple
HEAT repeats.
Length = 88
Score = 28.8 bits (65), Expect = 0.50
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 105 QLRHERDVTAQFDAIRALERFPTTTTRLALTDTIESERAYVQVRCKAAQALTKVKE 160
L + D + A RAL AL + ++ V R AA+AL K+ +
Sbjct: 7 ALLSDPDPEVRAAAARALGELGDPEALPALLELLKDPDPEV--RRAAAEALGKLGD 60
>gnl|CDD|217539 pfam03407, Nucleotid_trans, Nucleotide-diphospho-sugar
transferase. Proteins in this family have been been
predicted to be nucleotide-diphospho-sugar
transferases.
Length = 208
Score = 28.8 bits (65), Expect = 1.2
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 1 MSPQYLDIMRKKAHLMIRMLEHRIGFELILQ-----LRLPRPVDSVGSGDDYYSSDS 52
S YL + ++ L++ +LE F + LR P P+ + D SSD+
Sbjct: 44 GSKTYLKMSWRRVRLLLELLELGYNF-IFSDVDVVWLRNPFPLLYLPDADIIISSDN 99
>gnl|CDD|226070 COG3540, PhoD, Phosphodiesterase/alkaline phosphatase D
[Inorganic ion transport and metabolism].
Length = 522
Score = 28.9 bits (65), Expect = 1.5
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 41 VGSGDDYYSSDSPVLWIRLDPEMTIIRSVVIEASDSPVLW-IRLDPEM-TIIRSV 93
V SGD + S V+W RLDPE PV+W + D I+R
Sbjct: 43 VASGDPT--ATSVVIWTRLDPEPLNG------GRPVPVIWEVSTDENFSNIVRKG 89
>gnl|CDD|220234 pfam09423, PhoD, PhoD-like phosphatase.
Length = 452
Score = 27.9 bits (63), Expect = 2.8
Identities = 15/53 (28%), Positives = 18/53 (33%), Gaps = 6/53 (11%)
Query: 41 VGSGDDYYSSDSPVLWIRLDPEMTIIRSVVIEASDSPVLW-IRLDPEMTIIRS 92
V SGD DS VLW RL P+ V W + D +
Sbjct: 3 VASGDPL--PDSVVLWTRLAPDDPDGGMPDAPV---RVEWEVATDEGFRRVVR 50
>gnl|CDD|193082 pfam12566, DUF3748, Protein of unknown function (DUF3748). This
domain family is found in bacteria and eukaryotes, and
is approximately 120 amino acids in length.
Length = 122
Score = 27.0 bits (60), Expect = 3.1
Identities = 9/17 (52%), Positives = 9/17 (52%)
Query: 96 EQPDYQWQYQLRHERDV 112
E PD WQY H R V
Sbjct: 23 ENPDADWQYDFHHRRGV 39
>gnl|CDD|236161 PRK08137, PRK08137, amidase; Provisional.
Length = 497
Score = 27.8 bits (62), Expect = 3.3
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 117 DAIRALERFPTTTTRLALTDTIESERAYVQVRCKAAQAL 155
D I A + PTT LAL + A++ R + A A+
Sbjct: 82 DNIDAADPMPTTAGSLALAGNRPTRDAFLVARLRDAGAV 120
>gnl|CDD|184889 PRK14895, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 513
Score = 27.4 bits (60), Expect = 4.8
Identities = 31/139 (22%), Positives = 54/139 (38%), Gaps = 10/139 (7%)
Query: 26 FELILQLRLPRPVDSVGSGDDYYSSDSPVLWIRLDPEMTIIRSVVIEASDSPVLWIRLDP 85
++L L + LP+ Y P L +R + + + R I DSP+++ +
Sbjct: 371 YKLPLAVELPKKFKVSEQEIGYIKQAMPSLLVRSETLLELTRLAQIYLVDSPIIYSQDSK 430
Query: 86 EMTIIRSVVIEQPDYQWQYQLRHERDVTAQFDAIRALERFP--TTTTRLALTDTIESERA 143
E +IE D Q+ QFD +F L L D ++ RA
Sbjct: 431 E-------IIENCDKNLIKQIIENLSELEQFDKESVQNKFKEIAAANDLKLNDIMKPVRA 483
Query: 144 YVQVRCKAAQALTKVKEIL 162
+ A+ ++ ++ EIL
Sbjct: 484 LI-TGMTASPSVFEIAEIL 501
>gnl|CDD|223958 COG1027, AspA, Aspartate ammonia-lyase [Amino acid transport and
metabolism].
Length = 471
Score = 27.3 bits (61), Expect = 5.5
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 120 RALERFPTTTTRLALTDTIESERAYVQVRCKAAQALTKVKEI 161
RA+E FP + L ++D E RA V+ AA A ++ +
Sbjct: 28 RAVENFPIS--GLKISDVPEFIRAMAMVKKAAALANKELGAL 67
>gnl|CDD|222169 pfam13485, Peptidase_MA_2, Peptidase MA superfamily.
Length = 128
Score = 26.0 bits (57), Expect = 7.6
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 3 PQYLDIMRKKAHLMIRMLEHRIGFELILQL 32
+ + + +R L R G E + L
Sbjct: 95 SEDGSLAYAQGAAFVRYLAERYGEEKLRAL 124
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
0.324 0.136 0.395
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,118,748
Number of extensions: 855492
Number of successful extensions: 866
Number of sequences better than 10.0: 1
Number of HSP's gapped: 864
Number of HSP's successfully gapped: 23
Length of query: 172
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 82
Effective length of database: 6,945,742
Effective search space: 569550844
Effective search space used: 569550844
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.0 bits)