RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17574
(143 letters)
>gnl|CDD|211426 cd11585, SATB1_N, N-terminal domain of SATB1 and similar proteins.
SATB1, the special AT-rich sequence-binding protein 1,
is involved in organizing chromosomal loci into distinct
loops, creating a "loopscape" that has a direct bearing
on gene expression. This N-terminal domain, which may be
involved in various interactions with chromatin
proteins, resembles a ubiquitin domain and has been
shown to form tetramers, a function critical to
SATB1-DNA interactions. The related Drosophila homeobox
gene defective proventriculus (dve) plays a key role in
the functional specification during endoderm
development.
Length = 100
Score = 139 bits (351), Expect = 8e-44
Identities = 58/103 (56%), Positives = 71/103 (68%), Gaps = 3/103 (2%)
Query: 5 LPVHCVVEAVYSVHHWKSAKNSRKAILETDTYVITPTNTNFQDLVPVALQRLGYSKENFY 64
LPVHCVVE V S+H R+ +ETD+YVI P +T F LV AL RLGYS +
Sbjct: 1 LPVHCVVETVDSLHESVW---RRRPRVETDSYVIIPKDTLFNQLVETALLRLGYSHSSAA 57
Query: 65 SAKGYVGIKNWKPISISKISENPATTVGDILGELTTVATLRIK 107
SAKG + IKNWKP+ +I++NP TVGD+LGELT VATLRI+
Sbjct: 58 SAKGLIQIKNWKPLPFDQITDNPDATVGDMLGELTHVATLRIQ 100
>gnl|CDD|149988 pfam09134, Invasin_D3, Invasin, domain 3. Members of this family
adopt a structure consisting of an immunoglobulin-like
beta-sandwich, with seven strands in two beta-sheets,
arranged in a Greek-key topology. It forms part of the
extracellular region of the protein, which can be
expressed as a soluble protein (Inv497) that binds
integrins and promotes subsequent uptake by cells when
attached to bacteria.
Length = 99
Score = 27.3 bits (60), Expect = 1.7
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 72 IKNWKPISISKISENP----ATTVGDILGELT 99
I+N P+SIS I+EN A+ VG+ G++
Sbjct: 46 IQNGVPVSISPITENADNYTASVVGNSAGDVD 77
>gnl|CDD|235184 PRK03979, PRK03979, ADP-specific phosphofructokinase; Provisional.
Length = 463
Score = 27.6 bits (62), Expect = 2.5
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 58 YSKENFYSAKGYVGIKNWKPISI-SKISENPATTVG 92
KE F AK ++ +K + I S++ ENP +TVG
Sbjct: 405 LLKERFEEAKKECRLEEYKIVLIPSRLVENPKSTVG 440
>gnl|CDD|235047 PRK02509, PRK02509, hypothetical protein; Provisional.
Length = 973
Score = 27.7 bits (62), Expect = 2.7
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 15/48 (31%)
Query: 33 TDTYVITPTNTNFQDLVPVALQRLGY-SKE----NFYSAKGYVGIKNW 75
T+TYV+TPT Q L Y S + N Y KG + I +W
Sbjct: 581 TNTYVMTPTRV----------QELDYPSGQDNVYNTYDGKGGIAIGSW 618
>gnl|CDD|235828 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
Validated.
Length = 953
Score = 26.9 bits (60), Expect = 4.8
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 48 LVPVALQRLGYSKE 61
VP AL++LGYS+E
Sbjct: 581 TVPRALKKLGYSEE 594
>gnl|CDD|183673 PRK12676, PRK12676, bifunctional inositol-1
monophosphatase/fructose-1,6-bisphosphatase; Reviewed.
Length = 263
Score = 26.4 bits (59), Expect = 5.0
Identities = 21/66 (31%), Positives = 25/66 (37%), Gaps = 9/66 (13%)
Query: 55 RLGYSKE----NFYSA-KGYVGIKNWKPISISKISENPATTVGDILG---ELTTVATLRI 106
GY +FY A G N KPI +SK SE + V I G L
Sbjct: 115 VYGYVYNLATGDFYEAIPGKGAYLNGKPIKVSKTSELNESAVS-IYGYRRGKERTVKLGR 173
Query: 107 KIFRTR 112
K+ R R
Sbjct: 174 KVRRVR 179
>gnl|CDD|183767 PRK12817, flgG, flagellar basal body rod protein FlgG; Reviewed.
Length = 260
Score = 26.6 bits (59), Expect = 5.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 41 TNTNFQDLVPVALQRLGY 58
+ +F DLV L R GY
Sbjct: 37 EDVSFSDLVYETLDRKGY 54
>gnl|CDD|131100 TIGR02045, P_fruct_ADP, ADP-specific phosphofructokinase.
Phosphofructokinase is a key enzyme of glycolysis. The
phosphate group donor for different subtypes of
phosphofructokinase can be ATP, ADP, or pyrophosphate.
This family consists of ADP-dependent
phosphofructokinases. Members are more similar to
ADP-dependent glucokinases (excluded from this family)
than to other phosphofructokinases [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 446
Score = 26.3 bits (58), Expect = 5.9
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 49 VPVALQRLGYSKENFYSAKGYVGIKNWKPISI-SKISENPATTVG 92
VP +R K F AK + K +K + I S++ ENP +TVG
Sbjct: 383 VPYN-ERGDLEKLRFEEAKRKLRTKEYKAVLIPSRLVENPKSTVG 426
>gnl|CDD|181241 PRK08130, PRK08130, putative aldolase; Validated.
Length = 213
Score = 26.0 bits (58), Expect = 6.6
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 31 LETDTYVITPTNTNFQDLVPVALQRL 56
L+ +++TPT + L P L ++
Sbjct: 34 LDDGGWLVTPTGSCLGRLDPARLSKV 59
>gnl|CDD|220325 pfam09637, Med18, Med18 protein. Med18 is one subunit of Mediator,
a head-module multiprotein complex, that stimulates
basal RNA polymerase II (Pol II) transcription. Med18
consists of an eight-stranded beta-barrel with a central
pore and three flanking helices. It complexes with Med8
and Med20 proteins by forming a heterodimer of two-fold
symmetry with Med20 and binding the C-terminal
alpha-helix region of Med8 across the top of its barrel.
This complex creates a multipartite TBP-binding site
that can be modulated by transcriptional activators.
Length = 243
Score = 25.8 bits (57), Expect = 7.9
Identities = 12/44 (27%), Positives = 19/44 (43%)
Query: 47 DLVPVALQRLGYSKENFYSAKGYVGIKNWKPISISKISENPATT 90
+ L+ LGY + Y KG K I++SK+ + P
Sbjct: 136 GSLLQFLKELGYRFDYEYITKGVRFFKGDIVITLSKVFKIPDEG 179
>gnl|CDD|239652 cd03680, MM_CoA_mutase_ICM_like, Coenzyme
B12-dependent-methylmalonyl coenzyme A (CoA) mutase
(MCM) family, isobutyryl-CoA mutase (ICM)-like
subfamily; contains archaeal and bacterial proteins
similar to the large subunit of Streptomyces
cinnamonensis coenzyme B12-dependent ICM. ICM from S.
cinnamonensis is comprised of a large and a small
subunit. The holoenzyme appears to be an alpha2beta2
heterotetramer with up to 2 molecules of coenzyme B12
bound. The small subunit binds coenzyme B12. ICM
catalyzes the reversible rearrangement of n-butyryl-CoA
to isobutyryl-CoA, intermediates in fatty acid and
valine catabolism, which in S. cinnamonensis can be
converted to methylmalonyl-CoA and used in polyketide
synthesis.
Length = 538
Score = 25.7 bits (57), Expect = 10.0
Identities = 14/30 (46%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 64 YSAKGYVGIKNWKPISIS--KISENPATTV 91
Y AK + W PISIS I E AT V
Sbjct: 214 YCAKN---VPKWNPISISGYHIREAGATAV 240
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
0.318 0.134 0.394
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,937,854
Number of extensions: 598734
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 426
Number of HSP's successfully gapped: 20
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
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 (21.7 bits)
S2: 54 (24.6 bits)