RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8027
(250 letters)
>gnl|CDD|198088 smart01020, B2-adapt-app_C, Beta2-adaptin appendage, C-terminal
sub-domain. Members of this family adopt a structure
consisting of a 5 stranded beta-sheet, flanked by one
alpha helix on the outer side, and by two alpha helices
on the inner side. This domain is required for binding
to clathrin, and its subsequent polymerisation.
Furthermore, a hydrophobic patch present in the domain
also binds to a subset of D-phi-F/W motif-containing
proteins that are bound by the alpha-adaptin appendage
domain (epsin, AP180, eps15).
Length = 111
Score = 132 bits (334), Expect = 1e-39
Identities = 58/119 (48%), Positives = 75/119 (63%), Gaps = 9/119 (7%)
Query: 128 FMEDGEMERKTFLTTWKEIPTQNEDGNAIFCCQVQFTLTNIALGADAIVSRMKQNNVFTI 187
F+EDG+MER+ FL TWK +P NE QF L L D I+ +++ NN+FTI
Sbjct: 1 FVEDGQMEREVFLKTWKSLPESNE---------QQFQLQPNNLNPDTIIKKLQSNNIFTI 51
Query: 188 AKRNVEGKDMLYQSLRLTNGIWVLNELKIQPGDPSVTLSLKSRSSDVAQDIFHAYDAIL 246
AKRNV +D LY S +LTNGIW+L EL I PG P+VTLS+K S +V Q ++ IL
Sbjct: 52 AKRNVGNQDKLYLSAKLTNGIWILIELTINPGTPNVTLSVKCDSPEVIQLFTQVFEKIL 110
>gnl|CDD|220099 pfam09066, B2-adapt-app_C, Beta2-adaptin appendage, C-terminal
sub-domain. Members of this family adopt a structure
consisting of a 5 stranded beta-sheet, flanked by one
alpha helix on the outer side, and by two alpha helices
on the inner side. This domain is required for binding
to clathrin, and its subsequent polymerisation.
Furthermore, a hydrophobic patch present in the domain
also binds to a subset of D-phi-F/W motif-containing
proteins that are bound by the alpha-adaptin appendage
domain (epsin, AP180, eps15).
Length = 113
Score = 111 bits (280), Expect = 2e-31
Identities = 39/120 (32%), Positives = 63/120 (52%), Gaps = 7/120 (5%)
Query: 128 FMEDGEMERKTFLTTWKEIPTQNEDGNAIFCCQVQFTLTNIALGADAIVSRMKQNNVFTI 187
+EDG++ R+ F TW+ +P N +Q L D+I +++NN++TI
Sbjct: 1 LVEDGKLTREEFEETWQSLPESNS-----QELTLQPNAVV--LNPDSIEELLQRNNIYTI 53
Query: 188 AKRNVEGKDMLYQSLRLTNGIWVLNELKIQPGDPSVTLSLKSRSSDVAQDIFHAYDAILH 247
AK +G+ MLY S + TNG+ L EL PG V +S+KS + ++A ++IL
Sbjct: 54 AKGEEDGQKMLYFSAKTTNGVLFLIELIFNPGSSKVQISVKSSNPEIAPLFLQLVESILK 113
>gnl|CDD|197886 smart00809, Alpha_adaptinC2, Adaptin C-terminal domain. Adaptins
are components of the adaptor complexes which link
clathrin to receptors in coated vesicles.
Clathrin-associated protein complexes are believed to
interact with the cytoplasmic tails of membrane
proteins, leading to their selection and concentration.
Gamma-adaptin is a subunit of the golgi adaptor. Alpha
adaptin is a heterotetramer that regulates clathrin-bud
formation. The carboxyl-terminal appendage of the alpha
subunit regulates translocation of endocytic accessory
proteins to the bud site. This Ig-fold domain is found
in alpha, beta and gamma adaptins and consists of a
beta-sandwich containing 7 strands in 2 beta-sheets in a
greek-key topology.. The adaptor appendage contains an
additional N-terminal strand.
Length = 104
Score = 63.0 bits (154), Expect = 5e-13
Identities = 30/109 (27%), Positives = 43/109 (39%), Gaps = 12/109 (11%)
Query: 14 KGKGMEIWGTFSRKPNPATPGIGVIEMELTFTNKSMAPMANFAIQVNKNSFGLTPARPLQ 73
+ G++I F R+P G+I + LTFTNKS +P+ NF+ Q +P
Sbjct: 3 EKNGLQIGFKFERRP-------GLIRITLTFTNKSPSPITNFSFQAAVPKSLKLQLQPPS 55
Query: 74 VMSPLLPSLSVEASLPMATTGAVQ---RMEPLTNLQV-AVKNNLDVFYF 118
L P + L + G R+ L AV DV F
Sbjct: 56 S-PTLPPGGQITQVLKVENPGKFPLRLRLRLSYLLGGSAVTEQGDVLKF 103
>gnl|CDD|217268 pfam02883, Alpha_adaptinC2, Adaptin C-terminal domain. Alpha
adaptin is a heterotetramer which regulates clathrin-bud
formation. The carboxyl-terminal appendage of the alpha
subunit regulates translocation of endocytic accessory
proteins to the bud site. This ig-fold domain is found
in alpha, beta and gamma adaptins.
Length = 115
Score = 50.4 bits (121), Expect = 3e-08
Identities = 23/109 (21%), Positives = 37/109 (33%), Gaps = 14/109 (12%)
Query: 9 WLPAEKGKGMEIWGTFSRKPNPATPGIGVIEMELTFTNKSMAPMANFAIQV---NKNSFG 65
L G + R+P I + LTFTNKS +P+ NF+ Q
Sbjct: 4 VLYESNGLQIGFSFEKPRRPG-------QIRITLTFTNKSSSPITNFSFQAAVPKSLKLQ 56
Query: 66 LTPARPLQVMSPLLPSLSVEASLPMATTGAVQRMEPLTNLQVAVKNNLD 114
L P + P + L + + L+V + N++
Sbjct: 57 LQPP-SSNTLPPFGGGQITQVLLV---ENFSEPGKKPLRLRVKISYNIN 101
>gnl|CDD|225618 COG3076, COG3076, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 135
Score = 30.2 bits (68), Expect = 0.45
Identities = 10/34 (29%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 148 TQNEDGNAIFCCQVQFTLTNIALGADAIVSRMKQ 181
+ EDG+ + CC + ++ +AL A+ I ++++Q
Sbjct: 63 LEVEDGDIVICCDI---ISEVALNAELIDAQVEQ 93
>gnl|CDD|232977 TIGR00440, glnS, glutaminyl-tRNA synthetase. This protein is a
relatively rare aminoacyl-tRNA synthetase, found in the
cytosolic compartment of eukaryotes, in E. coli and a
number of other Gram-negative Bacteria, and in
Deinococcus radiodurans. In contrast, the pathway to
Gln-tRNA in mitochondria, Archaea, Gram-positive
Bacteria, and a number of other lineages is by
misacylation with Glu followed by transamidation to
correct the aminoacylation to Gln. This enzyme is a
class I tRNA synthetase (hit by the pfam model
tRNA-synt_1c) and is quite closely related to
glutamyl-tRNA synthetases [Protein synthesis, tRNA
aminoacylation].
Length = 522
Score = 30.7 bits (69), Expect = 0.83
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 28 PN-PATPGIGVIEMELTFTNKSMAPMANFAIQVNKNSFGLTPARPLQV 74
PN P TP G E ++ FTN+ A+F + NK L + +++
Sbjct: 340 PNHPNTPEFG--ERQVPFTNEFYIDRADFREEANKQYKRLVLGKEVRL 385
>gnl|CDD|203428 pfam06350, HSL_N, Hormone-sensitive lipase (HSL) N-terminus. This
family consists of several mammalian hormone-sensitive
lipase (HSL) proteins (EC:3.1.1.-). Hormone-sensitive
lipase, a key enzyme in fatty acid mobilisation, overall
energy homeostasis, and possibly steroidogenesis, is
acutely controlled through reversible phosphorylation by
catecholamines and insulin.
Length = 315
Score = 29.3 bits (66), Expect = 1.8
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 48 SMAPMANFAIQVNKNSFGLT-PARPLQVMSPLLPSLSVEASLPMATTGA 95
S+ + + ++VN+ LT P PLQ+ P LSV P A G
Sbjct: 252 SLPSIVSSKVKVNRL---LTLPPEPLQLPLASDPELSVTIPPPTAHGGP 297
>gnl|CDD|107328 cd06333, PBP1_ABC-type_HAAT_like, Type I periplasmic binding
component of ABC (ATPase Binding Cassette)-type
transport systems that are predicted to be involved in
uptake of amino acids. This subgroup includes the type
I periplasmic binding component of ABC (ATPase Binding
Cassette)-type transport systems that are predicted to
be involved in uptake of amino acids. Members of this
subgroup are sequence-similar to members of the family
of ABC-type hydrophobic amino acid transporters (HAAT),
such as leucine-isoleucine-valine-binding protein
(LIVBP); their ligand specificity has not been
determined experimentally, however.
Length = 312
Score = 29.1 bits (66), Expect = 2.0
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 167 NIALGADAIVSRMKQNNVFTIAKRNVE---GKDMLYQSLRLT--NGIWVLNELKIQPGDP 221
N L A+AI++ MK+ V T+A G+ L + L GI V+ + + D
Sbjct: 116 NDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALAPKYGIEVVADERYGRTDT 175
Query: 222 SVT 224
SVT
Sbjct: 176 SVT 178
>gnl|CDD|236876 PRK11191, PRK11191, RNase E inhibitor protein; Provisional.
Length = 138
Score = 28.0 bits (63), Expect = 2.5
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 6/44 (13%)
Query: 151 EDGNAIFCCQVQFTLTNIALGADAIVSRMKQNNVFTIA-KRNVE 193
EDG+ IFCC ++ +AL A+ I ++++Q + +A K +VE
Sbjct: 69 EDGDVIFCCDA---VSEVALNAELIDAQVEQ--LLALAEKFDVE 107
>gnl|CDD|217835 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 28.7 bits (64), Expect = 3.5
Identities = 16/65 (24%), Positives = 24/65 (36%), Gaps = 4/65 (6%)
Query: 39 EMELTFTNKSMAPMANFAIQVNKNSFGLTPARPLQVMSPLL--PSLSVEASLPMATTGAV 96
ME + + + +N +T P +P L SLS EASL +TG
Sbjct: 456 VMEPPYGSTESS--VPSTPSTRRNDRNITSNTPSLKRTPNLTKSSLSQEASLISKSTGNT 513
Query: 97 QRMEP 101
+
Sbjct: 514 HKHST 518
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 28.4 bits (64), Expect = 3.5
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 39 EMELTFTNKSMAPMANFAIQVNKNS--FGLTPARPLQ-VMSPLLPSLSVEAS 87
+EL FT+ ++ +A A QVN+ + G AR L V+ LL +S EA
Sbjct: 364 GVELEFTDDAIKRIAEIAYQVNEKTENIG---ARRLHTVLERLLEDISFEAP 412
>gnl|CDD|234180 TIGR03356, BGL, beta-galactosidase.
Length = 426
Score = 28.3 bits (64), Expect = 3.9
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 11 PAEKGKGMEIWGTFSRKP 28
E G+G IW TFS P
Sbjct: 19 VNEDGRGPSIWDTFSHTP 36
>gnl|CDD|215959 pfam00508, PPV_E2_N, E2 (early) protein, N terminal.
Length = 201
Score = 27.1 bits (61), Expect = 8.3
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 122 VPINVYFMEDGEMERKTFLTTWKEIPTQNEDGN 154
+ V F DG+ E T W I Q++DG+
Sbjct: 114 QTVEVIF--DGDPENAMEYTLWTYIYYQDDDGD 144
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 0.133 0.399
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,407,454
Number of extensions: 1121051
Number of successful extensions: 742
Number of sequences better than 10.0: 1
Number of HSP's gapped: 740
Number of HSP's successfully gapped: 16
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
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: 58 (26.1 bits)