RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1348
(87 letters)
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 85.0 bits (211), Expect = 2e-23
Identities = 34/83 (40%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 2 ACGLAGGLSGLISWALIMPFDVVKSTLQSDSLTDP-KYKGMFDCFRKNYRQYGWTFFFRG 60
A LAGG++G I+ + P DVVK+ LQS + KYKG+ DCF+K Y++ G ++G
Sbjct: 7 ASLLAGGIAGAIAATVTYPLDVVKTRLQSSAAGGSRKYKGILDCFKKIYKEEGIRGLYKG 66
Query: 61 ISITTIRAFPVNYIMFVTYEEFK 83
+ +R P I F TYE K
Sbjct: 67 LLPNLLRVAPAAAIYFGTYETLK 89
>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
Provisional.
Length = 300
Score = 48.6 bits (116), Expect = 3e-08
Identities = 28/86 (32%), Positives = 44/86 (51%), Gaps = 7/86 (8%)
Query: 5 LAGGLSGLISWALIMPFDVVKSTLQS-DSLTD------PKYKGMFDCFRKNYRQYGWTFF 57
L GG+S IS + P + VK +Q+ DS+ + P+Y G+ +CFR+ ++ G
Sbjct: 12 LMGGISAAISKTAVAPIERVKMLIQTQDSIPEIKSGKVPRYSGIVNCFRRVSKEQGVLSL 71
Query: 58 FRGISITTIRAFPVNYIMFVTYEEFK 83
+RG + IR FP F + FK
Sbjct: 72 WRGNTANVIRYFPTQAFNFAFKDYFK 97
Score = 43.2 bits (102), Expect = 2e-06
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 4/66 (6%)
Query: 5 LAGGLSGLISWALIMPFDVVKSTLQSD--SLTDPKYKGMFDCFRKNYRQYGWTFFFRG-- 60
L+GGL+G S ++ P D ++ L SD D ++ G+FDC K +Q G+ ++G
Sbjct: 118 LSGGLAGASSLLIVYPLDFARTRLASDIGKGGDREFTGLFDCLMKISKQTGFLSLYQGFG 177
Query: 61 ISITTI 66
+S+ I
Sbjct: 178 VSVQGI 183
Score = 35.9 bits (83), Expect = 8e-04
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 9/79 (11%)
Query: 9 LSGLISWALIMPFDVVKSTLQSDS----LTDPKYKGMFDCFRKNYRQYGWTFFFRGISIT 64
L+GLIS+ PFD V+ + S ++ +Y G DC++K + G FF+G
Sbjct: 223 LAGLISY----PFDTVRRRMMMMSGRKAKSEIQYTGTLDCWKKILKNEGLGGFFKGAWAN 278
Query: 65 TIRAFPVNYIMFVTYEEFK 83
+R ++ V Y+E +
Sbjct: 279 VLRGAG-GALVLVFYDELQ 296
>gnl|CDD|114347 pfam05619, DUF787, Borrelia burgdorferi protein of unknown function
(DUF787). This family consists of several hypothetical
proteins of unknown function from Borrelia burgdorferi
(Lyme disease spirochete).
Length = 367
Score = 27.3 bits (60), Expect = 0.96
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 26 STLQSDSLTDPKYKGMFDCFRKNYRQYGWTFFFRGISIT 64
S L D D Y +CF ++ G ++ I +
Sbjct: 295 SALNLDGALDNAYTAAIECFFHEFKDRGLIIEYKEIKLK 333
>gnl|CDD|200496 cd11235, Sema_semaphorin, The Sema domain, a protein interacting
module, of semaphorins. Semaphorins are regulator
molecules in the development of the nervous system and
in axonal guidance. They also play important roles in
other biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. They can be
divided into 7 classes. Vertebrates have members in
classes 3-7, whereas classes 1 and 2 are known only in
invertebrates. Class 2 and 3 semaphorins are secreted
proteins; classes 1 and 4 through 6 are transmembrane
proteins; and class 7 is membrane associated via
glycosylphosphatidylinositol (GPI) linkage. The
semaphorins exert their function through their
receptors, the neuropilin and plexin families. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 437
Score = 27.4 bits (61), Expect = 1.0
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 25 KSTLQSDS--LTDPKYKGMFDCFRKNYRQYGWTFFFRGISITTIRAFPVNY 73
T DS L +P++ G FD Y + FFFR I++ I Y
Sbjct: 149 LRTEYHDSKWLNEPQFVGAFD-----IGDYVY-FFFREIAVEYINCGKAVY 193
>gnl|CDD|185494 PTZ00168, PTZ00168, mitochondrial carrier protein; Provisional.
Length = 259
Score = 26.8 bits (59), Expect = 1.2
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
Query: 5 LAGGLSGLISWALIMPFDVVKSTLQSD---SLTDPK--YKGMF 42
+ G LSG+I A++ P D +K+ +Q+ S +D K Y G+
Sbjct: 8 VTGALSGVIVDAVLYPIDSIKTNIQAKKSFSFSDIKKLYSGIL 50
Score = 26.4 bits (58), Expect = 1.7
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 11/65 (16%)
Query: 5 LAGGLSGLISWALIMPFDVVKS------TLQSDSLTDPKYKGMFD-----CFRKNYRQYG 53
+ GGL+G I+ L P DV+KS +++T+ +G CFR +Y +G
Sbjct: 184 ICGGLAGGIAGFLTTPVDVIKSRQIIYGKSYIETVTEIAEEGYLTFYKGCCFRSSYLFFG 243
Query: 54 WTFFF 58
FF
Sbjct: 244 GLIFF 248
>gnl|CDD|233978 TIGR02701, shell_carb_anhy, carboxysome shell carbonic anhydrase.
This model describes a carboxysome shell protein that
proves to be a novel class, designated epsilon, of
carbonic anhydrase. It tends to be encoded near genes
for RuBisCo and for other carboxysome shell proteins
[Central intermediary metabolism, One-carbon
metabolism].
Length = 450
Score = 26.3 bits (58), Expect = 2.2
Identities = 19/77 (24%), Positives = 29/77 (37%), Gaps = 15/77 (19%)
Query: 7 GGLSGLISWALIMPFDVVKSTLQSDSLTDPKYKG-MFDCFRKNYRQYGWTFFFR---GIS 62
G L GL+ + L +P D V+ Y G MFD + ++ T R G+
Sbjct: 126 GRLKGLLPYILRLPLDAVRYR--------KAYAGAMFD-VEADVARWIKTELRRYREGVP 176
Query: 63 ITTIRAFPVNYIMFVTY 79
+ P Y+ Y
Sbjct: 177 NSADE--PTRYLKIAVY 191
>gnl|CDD|213742 TIGR02827, RNR_anaer_Bdell, anaerobic ribonucleoside-triphosphate
reductase. Members of this family belong to the class
III anaerobic ribonucleoside-triphosphate reductases
(RNR). These glycine-radical-containing enzymes are
oxygen-sensitive and operate under anaerobic conditions.
The genes for this family are pair with genes for an
acitivating protein that creates a glycine radical.
Members of this family, though related, fall outside the
scope of TIGR02487, a functionally equivalent protein
set; no genome has members in both familes.
Identification as RNR is supported by gene pairing with
the activating protein, lack of other anaerobic RNR, and
presence of an upstream regulatory element strongly
conserved upstream of most RNR operons [Purines,
pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 586
Score = 25.9 bits (57), Expect = 3.1
Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 8 GLSGLISWALIMPFDVVKSTLQSDSLTDPKYKGMFDCFRKNYRQYGWTF 56
G++G++ A M V + K +++ +K Y +YG+ F
Sbjct: 386 GINGMVEAAEFMGLTV-GYNEEYKDFVQNVLKVIYEANQKAYHEYGFMF 433
>gnl|CDD|129561 TIGR00469, pheS_mito, phenylalanyl-tRNA synthetase, mitochondrial.
Unlike all other known phenylalanyl-tRNA synthetases,
the mitochondrial form demonstrated from yeast is
monomeric. It is similar to but longer than the alpha
subunit (PheS) of the alpha 2 beta 2 form found in
Bacteria, Archaea, and eukaryotes, and shares the
characteristic motifs of class II aminoacyl-tRNA
ligases. This model models the experimental example from
Saccharomyces cerevisiae (designated MSF1) and its
orthologs from other eukaryotic species [Protein
synthesis, tRNA aminoacylation].
Length = 460
Score = 25.8 bits (56), Expect = 3.8
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 22 DVVKSTLQSDSLTDPKYKGMFDCFRKNYR 50
D+V+ D PK CFR NY+
Sbjct: 402 DLVEQIKLVDKFKHPKTGKKSMCFRINYQ 430
>gnl|CDD|234359 TIGR03802, Asp_Ala_antiprt, aspartate-alanine antiporter. All
members of the seed alignment for this model are
asparate-alanine anti-transporters (AspT) encoded next
to the gene for aspartate 4-decarboxylase (AspD), which
converts asparate to alanine, releasing CO2. The
exchange of Asp for Ala is electrogenic, so the
AspD/AspT system confers a proton-motive force. This
transporter contains two copies of the AspT/YidE/YbjL
antiporter duplication domain (TIGR01625).
Length = 562
Score = 25.3 bits (56), Expect = 5.1
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 50 RQYGWTFFFRGISITTIRAFPVNYIMFVTYEEFKCH 85
++ G T F GI +T + P+ M + K
Sbjct: 474 KEMGLTLFLLGIVVTIL---PLIITMLIGKYVLKYD 506
>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373). Archaeal
domain of unknown function. Predicted to be an integral
membrane protein with six transmembrane regions.
Length = 344
Score = 24.9 bits (55), Expect = 7.0
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 49 YRQYGWTFFFRGISITTIRAFPVNYIMFVTY 79
YR +G F R + + I F+TY
Sbjct: 199 YRGFGLDDFLRELLKRVRESLYEGRITFITY 229
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
0.331 0.144 0.485
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,441,245
Number of extensions: 342292
Number of successful extensions: 472
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 19
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.6 bits)