RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6258
(136 letters)
>gnl|CDD|214780 smart00702, P4Hc, Prolyl 4-hydroxylase alpha subunit homologues.
Mammalian enzymes catalyse hydroxylation of collagen,
for example. Prokaryotic enzymes might catalyse
hydroxylation of antibiotic peptides. These are
2-oxoglutarate-dependent dioxygenases, requiring
2-oxoglutarate and dioxygen as cosubstrates and ferrous
iron as a cofactor.
Length = 165
Score = 59.3 bits (144), Expect = 5e-12
Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 10/59 (16%)
Query: 73 LTDVELGGATIFPSLNL----TVFPEKGSAVFWYNAHANTLLDYRMYHSGCPVALGNKW 127
L DVE GG +FP L L TV P+KG +F+ + H R H CPV G++W
Sbjct: 106 LNDVEEGGELVFPGLRLMVVATVKPKKGDLLFFPSGHG------RSLHGVCPVTRGSRW 158
Score = 57.0 bits (138), Expect = 4e-11
Identities = 24/59 (40%), Positives = 32/59 (54%), Gaps = 10/59 (16%)
Query: 11 LTDVELGGATIFPSLNL----TVFPEKGSAVFWHNAHANTLLDYWMYHSGCPVALGNKW 65
L DVE GG +FP L L TV P+KG +F+ + H +L H CPV G++W
Sbjct: 106 LNDVEEGGELVFPGLRLMVVATVKPKKGDLLFFPSGHGRSL------HGVCPVTRGSRW 158
>gnl|CDD|177683 PLN00052, PLN00052, prolyl 4-hydroxylase; Provisional.
Length = 310
Score = 43.1 bits (101), Expect = 1e-05
Identities = 30/98 (30%), Positives = 41/98 (41%), Gaps = 20/98 (20%)
Query: 48 LDYWMYHSGCPVALGNKWGKLLLSGLTDVELGGATIFPSLN------------------L 89
DY +H ALG +L L+ V+ GG T+FP+ L
Sbjct: 149 FDY--FHDKINQALGGHRYATVLMYLSTVDKGGETVFPNAEGWENQPKDDTFSECAHKGL 206
Query: 90 TVFPEKGSAVFWYNAHANTLLDYRMYHSGCPVALGNKW 127
V P KG AV +++ H + + D H CPV G KW
Sbjct: 207 AVKPVKGDAVLFFSLHIDGVPDPLSLHGSCPVIEGEKW 244
Score = 39.3 bits (91), Expect = 2e-04
Identities = 23/73 (31%), Positives = 31/73 (42%), Gaps = 18/73 (24%)
Query: 11 LTDVELGGATIFPSLN------------------LTVFPEKGSAVFWHNAHANTLLDYWM 52
L+ V+ GG T+FP+ L V P KG AV + + H + + D
Sbjct: 172 LSTVDKGGETVFPNAEGWENQPKDDTFSECAHKGLAVKPVKGDAVLFFSLHIDGVPDPLS 231
Query: 53 YHSGCPVALGNKW 65
H CPV G KW
Sbjct: 232 LHGSCPVIEGEKW 244
>gnl|CDD|162262 TIGR01229, rocF_arginase, arginase. This model helps resolve
arginases from known and putative agmatinases,
formiminoglutamases, and other related proteins of
unknown specifity. The pathway from arginine to the
polyamine putrescine may procede by hydrolysis to remove
urea (arginase) followed by decarboxylation (ornithine
decarboxylase), or by decarboxylation first (arginine
decarboxylase) followed by removal of urea (agmatinase).
Length = 300
Score = 30.1 bits (68), Expect = 0.34
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 91 VFPEKGSAVFWYNAHA--NTLLDYRMYH-SGCPVA 122
V P+K V W +AHA NT + G P+A
Sbjct: 106 VHPDKKLGVLWLDAHADINTPETSDSGNIHGMPLA 140
Score = 27.0 bits (60), Expect = 3.8
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 29 VFPEKGSAVFWHNAHA--NTLLDYWMYH-SGCPVA 60
V P+K V W +AHA NT + G P+A
Sbjct: 106 VHPDKKLGVLWLDAHADINTPETSDSGNIHGMPLA 140
>gnl|CDD|143602 cd07578, nitrilase_1_R1, First nitrilase domain of an
uncharacterized subgroup of the nitrilase superfamily
(putative class 13 nitrilases). Members of this
subgroup have two nitrilase domains. This is the first
of those two domains. The nitrilase superfamily is
comprised of nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13). Class 13 represents proteins that
at the time were difficult to place in a distinct
similarity group; this subgroup represents either a new
class or one that was included previously in class 13.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer.
Length = 258
Score = 27.9 bits (62), Expect = 1.4
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 14/53 (26%)
Query: 78 LGGATI--FPSLNLTVFPEKGSAVFWYNAHANTLLDYRMYHSGCPVALGNKWG 128
LGGA + S L E+ A +W N R + +GC + N+WG
Sbjct: 160 LGGADVICHISNWLA---ERTPAPYWIN---------RAFENGCYLIESNRWG 200
>gnl|CDD|212075 cd11506, SLC6sbd_GAT1, Na(+)- and Cl(-)-dependent GABA transporter
1; solute-binding domain. GAT1 transports
gamma-aminobutyric acid (GABA). GABA is the main
inhibitory neurotransmitter within the mammalian CNS.
Human GAT1 is encoded by the SLC6A1 gene. GAT1 is
expressed in brain and peripheral nervous system. The
antiepileptic drug, Tiagabine, inhibits GAT1. This
subgroup belongs to the solute carrier 6 (SLC6)
transporter family.
Length = 598
Score = 26.1 bits (57), Expect = 8.0
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 65 WGKLLLSGLTDVELGGATIFPSLNLT-------VFPEKGSAVFWYNAHANTLL 110
W KL S T + + G +F ++ +T VFP+ G V W+ A ++ +L
Sbjct: 494 WWKLCWSFFTPIIVAGVFLFSAVQMTPLTMGNYVFPKWGQGVGWFMALSSMVL 546
>gnl|CDD|215442 PLN02827, PLN02827, Alcohol dehydrogenase-like.
Length = 378
Score = 26.0 bits (57), Expect = 8.2
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 90 TVFPEKGSAVFWYNAHANTLLDYRMYHSGCPVALG 124
T F KG V+ Y A ++ +Y + HSGC V +
Sbjct: 130 TRFSIKGKPVYHYCA-VSSFSEYTVVHSGCAVKVD 163
>gnl|CDD|221808 pfam12851, Tet_JBP, Oxygenase domain of the 2OGFeDO superfamily. A
double-stranded beta helix (DSBH) fold domain of the
2-oxoglutarate (2OG)-Fe(II)-dependent dioxygenase
(2OGFeDO) superfamily found in various eukaryotes,
bacteria and bacteriophages. Members of this family
catalyze nucleic acid modifications, such as thymidine
hydroxylation during base J synthesis in kinetoplastids,
and the conversion of 5 methyl-cytosine (5-mC) to
5-hydroxymethyl-cytosine (hmC), or further oxidation to
5-formylcytosine (5fC) and 5-carboxylcytosine (5caC).
Metazoan TET proteins contain a cysteine-rich region
inserted into the core of the DSBH fold. Vertebrate TET
proteins are oncogenes that are mutated in various
myeloid cancers. Fungal and algal versions of this
family are linked to a predicted transposase and show
lineage-specific expansions.
Length = 162
Score = 25.4 bits (56), Expect = 8.3
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 17 GGATIFPSLNLTVFPEKGSAVFWH---NAHANTLLD 49
GG P L + P+ G +F+ H T +
Sbjct: 110 GGYLELPDLGVKFAPQPGDVLFFAGNKYVHGVTPVT 145
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 0.445
Gapped
Lambda K H
0.267 0.0691 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,715,471
Number of extensions: 575603
Number of successful extensions: 369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 18
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
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: 54 (24.7 bits)