RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5177
(213 letters)
>gnl|CDD|217410 pfam03184, DDE_1, DDE superfamily endonuclease. This family of
proteins are related to pfam00665 and are probably
endonucleases of the DDE superfamily. Transposase
proteins are necessary for efficient DNA transposition.
This domain is a member of the DDE superfamily, which
contain three carboxylate residues that are believed to
be responsible for coordinating metal ions needed for
catalysis. The catalytic activity of this enzyme
involves DNA cleavage at a specific site followed by a
strand transfer reaction. Interestingly this family also
includes the CENP-B protein. This domain in that protein
appears to have lost the metal binding residues and is
unlikely to have endonuclease activity. Centromere
Protein B (CENP-B) is a DNA-binding protein localised to
the centromere.
Length = 215
Score = 84.7 bits (210), Expect = 2e-20
Identities = 46/171 (26%), Positives = 73/171 (42%), Gaps = 12/171 (7%)
Query: 13 YWNPDSLVPPPKVVAKKRTKKLGQAASAERGELVTMIGIIRASGEAIPPVFVF----PRV 68
+W L+P ++ + G+ R +I A GE +PP+ + PR
Sbjct: 15 FWG---LLPNGTSSQPEKRRVPGKKPGKRR--WTVVICANAAGGEKLPPLVIGKGKNPRA 69
Query: 69 FMKDEFLLGAPEGSLGFANKSGWSSTEIFFE-TIKHIQNQIKASKENPALILMDNHETHQ 127
F ++ P ANK+ W + EIF E K +++ + L+++D H +H
Sbjct: 70 FKFEKK--PKPLPWEYKANKNAWMTDEIFEEWLEKVFDPRMQPAPGRKVLLILDGHGSHP 127
Query: 128 SMEAIEYCRASGITLLTFPPHKTDELQPLDVAVFSPFKNRLKAGFKKWTSD 178
+ E + C+ + I LL P H T LQPLD VFS K + K
Sbjct: 128 TDEFMRSCKLNNIILLFLPAHSTSLLQPLDQGVFSSLKAAYRRQLLKKALA 178
>gnl|CDD|222070 pfam13358, DDE_3, DDE superfamily endonuclease. This family of
proteins are related to pfam00665 and are probably
endonucleases of the DDE superfamily. Transposase
proteins are necessary for efficient DNA transposition.
This domain is a member of the DDE superfamily, which
contain three carboxylate residues that are believed to
be responsible for coordinating metal ions needed for
catalysis. The catalytic activity of this enzyme
involves DNA cleavage at a specific site followed by a
strand transfer reaction.
Length = 146
Score = 39.6 bits (93), Expect = 2e-04
Identities = 32/134 (23%), Positives = 51/134 (38%), Gaps = 31/134 (23%)
Query: 38 ASAERGELVTMIGIIRASGEAIPPVFVFPRVFMKDEFLLGAPEGSLGFANKSGWSSTEIF 97
R + V +IG + G P FV ++F F
Sbjct: 31 EPYGRRQRVNLIGALDPEGGLAP--FVEEGTVNAEDFAA--------------------F 68
Query: 98 FETIKHIQNQIKASKENPALILMDNHETHQSMEAIEYCRAS--GITLLTFPPHKTDELQP 155
E + Q + +I++DN H+S E E A GI LL PP+ + +L P
Sbjct: 69 LEKLLKPYLQPQ-----KIVIVLDNASYHKSKEVQELVEAEAAGIELLYLPPY-SPDLNP 122
Query: 156 LDVAVFSPFKNRLK 169
++ V+S K R++
Sbjct: 123 IE-LVWSVLKRRVR 135
>gnl|CDD|224707 COG1794, RacX, Aspartate racemase [Cell envelope biogenesis, outer
membrane].
Length = 230
Score = 28.4 bits (64), Expect = 2.4
Identities = 17/86 (19%), Positives = 24/86 (27%), Gaps = 21/86 (24%)
Query: 90 GWSSTEIFFETIKHIQNQIKASKENPALILM-----------DNHETHQSMEAI------ 132
G ST ++ I K + A +L+ I
Sbjct: 11 GPESTAPYYRKINEAVRA-KLGGLHSAELLLYSVDFPEIETLQRAGEWDEAGEILIDAAK 69
Query: 133 --EYCRASGITLLTFPPHK-TDELQP 155
E A I L T HK D++Q
Sbjct: 70 KLERAGADFIVLPTNTMHKVADDIQK 95
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 28.5 bits (64), Expect = 2.8
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 12/39 (30%)
Query: 89 SGWSSTEIFFETIKHIQNQIKASKE----------NPAL 117
S W E+FF T+K N+ KA+KE NPA
Sbjct: 276 SAWRLMELFFTTVK--TNRDKATKEVWVNTSEAEVNPAF 312
>gnl|CDD|223729 COG0656, ARA1, Aldo/keto reductases, related to diketogulonate
reductase [General function prediction only].
Length = 280
Score = 28.0 bits (63), Expect = 3.5
Identities = 9/43 (20%), Positives = 23/43 (53%)
Query: 100 TIKHIQNQIKASKENPALILMDNHETHQSMEAIEYCRASGITL 142
++H++ + +K PA+ ++ H + E + +C+ GI +
Sbjct: 144 GVEHLEELLSLAKVKPAVNQIEYHPYLRQPELLPFCQRHGIAV 186
>gnl|CDD|215470 PLN02872, PLN02872, triacylglycerol lipase.
Length = 395
Score = 28.3 bits (63), Expect = 3.6
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 60 PPVFVFPRVFMK-DEFLLGAPEGSLGF 85
PPV + +FM D + L +PE SLGF
Sbjct: 75 PPVLLQHGLFMAGDAWFLNSPEQSLGF 101
>gnl|CDD|223072 PHA03393, odv-e66, occlusion-derived virus envelope protein E66;
Provisional.
Length = 682
Score = 27.6 bits (62), Expect = 5.2
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 51 IIRASGEAIPPVFVFPRVFMKDEFLLGAPEGSLGFANKSGWSSTEIFFETIKHIQNQI 108
+I +G +I VF FP V +KD + ++ A S + F+ I + + I
Sbjct: 593 LIVTNGNSIKCVFDFPYVVLKDNETR---QVTINNATSSSREDHTLPFDVITRLLSLI 647
>gnl|CDD|224790 COG1878, COG1878, Kynurenine formamidase [Amino acid transport and
metabolism].
Length = 218
Score = 26.9 bits (60), Expect = 6.7
Identities = 12/50 (24%), Positives = 15/50 (30%)
Query: 111 SKENPALILMDNHETHQSMEAIEYCRASGITLLTFPPHKTDELQPLDVAV 160
SK H S+EA EY G+ + TD D
Sbjct: 117 SKRWGDEPAFQYHFPGISIEAAEYLIERGVKAVGIDTPSTDPGLSEDFPA 166
>gnl|CDD|238870 cd01832, SGNH_hydrolase_like_1, Members of the SGNH-hydrolase
superfamily, a diverse family of lipases and esterases.
The tertiary fold of the enzyme is substantially
different from that of the alpha/beta hydrolase family
and unique among all known hydrolases; its active site
closely resembles the Ser-His-Asp(Glu) triad from other
serine hydrolases, but may lack the carboxlic acid.
Myxobacterial members of this subfamily have been
reported to be involved in adventurous gliding motility.
Length = 185
Score = 26.8 bits (60), Expect = 7.1
Identities = 24/112 (21%), Positives = 43/112 (38%), Gaps = 31/112 (27%)
Query: 75 LLGAPEGSLGFAN--KSGWSSTEIFFETIKHIQNQI-KASKENPALI-----------LM 120
L A + + +AN G + +I Q+ A P L+
Sbjct: 32 ALAAADPGIEYANLAVRGRRTAQIL-------AEQLPAALALRPDLVTLLAGGNDILRPG 84
Query: 121 DNHETHQS--MEAIEYCRASGITLLTFPPHKTDELQPLDVAVFSPFKNRLKA 170
+ +T+++ EA+ RA+G ++ F D AV PF+ R++A
Sbjct: 85 TDPDTYRADLEEAVRRLRAAGARVVVFTIP--------DPAVLEPFRRRVRA 128
>gnl|CDD|220387 pfam09763, Sec3, Exocyst complex component Sec3. This entry is the
conserved middle and C-terminus of the Sec3 protein.
Sec3 binds to the C-terminal cytoplasmic domain of GLYT1
(glycine transporter protein 1). Sec3 is the exocyst
component that is closest to the plasma membrane docking
site and it serves as a spatial landmark in the plasma
membrane for incoming secretory vesicles. Sec3 is
recruited to the sites of polarised membrane growth
through its interaction with Rho1p, a small GTP-binding
protein.
Length = 691
Score = 27.3 bits (61), Expect = 7.4
Identities = 24/134 (17%), Positives = 43/134 (32%), Gaps = 32/134 (23%)
Query: 52 IRASGEAIPPVFVFPRVFMKDEFLLGAPEGSLGFANKSGWSSTEIF-----------FET 100
+++ +P V FP VF K E L A + G + FE+
Sbjct: 465 VKSRKGVLPFVRNFP-VFAK------RVEDMLSSAERRGLDVRTLVDKAYEKLIEAVFES 517
Query: 101 IKHIQNQIKASKENPALILMDNHETHQSMEAIEYCRASGITLLTFPPHKTDELQPLDVAV 160
++ I + NP + E + + L+ H + L L+ V
Sbjct: 518 LERI------APLNPNKSDAADE----DKEKLNRH----VLLIENMNHFLETLSVLNNGV 563
Query: 161 FSPFKNRLKAGFKK 174
++ K F +
Sbjct: 564 LESLRDEAKQIFDE 577
>gnl|CDD|240316 PTZ00216, PTZ00216, acyl-CoA synthetase; Provisional.
Length = 700
Score = 27.2 bits (61), Expect = 7.7
Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 2 MGTACLTAYTDYWNPDSLVPPPKVVAKKRTKKLGQAASAERGELVTMI 49
MG C+ + D N S VP P + +R E + I
Sbjct: 1 MG-GCVVSLMDKRNSRSEVPDPDIEEYRRYGPQNVPVPGTETENASAI 47
>gnl|CDD|238670 cd01374, KISc_CENP_E, Kinesin motor domain, CENP-E/KIP2-like
subgroup, involved in chromosome movement and/or spindle
elongation during mitosis. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Kinesins are microtubule-dependent
molecular motors that play important roles in
intracellular transport and in cell division. In most
kinesins, the motor domain is found at the N-terminus
(N-type). N-type kinesins are (+) end-directed motors,
i.e. they transport cargo towards the (+) end of the
microtubule. Kinesin motor domains hydrolyze ATP at a
rate of about 80 per second, and move along the
microtubule at a speed of about 6400 Angstroms per
second. To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second tubulin
dimer, about 80 Angstroms along the microtubule.
Meanwhile, ATP hydrolysis takes place, and when the
second head domain binds to the microtubule, the first
domain again replaces ADP with ATP, triggering a
conformational change that pulls the first domain
forward.
Length = 321
Score = 26.9 bits (60), Expect = 7.9
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 192 KISESSRRKFLYRVSRERLYN 212
+I ++ R+FL RVS +YN
Sbjct: 111 RIQDTPDREFLLRVSYLEIYN 131
>gnl|CDD|227121 COG4782, COG4782, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 377
Score = 27.0 bits (60), Expect = 8.1
Identities = 13/45 (28%), Positives = 16/45 (35%)
Query: 138 SGITLLTFPPHKTDELQPLDVAVFSPFKNRLKAGFKKWTSDNPGS 182
S L F + L DV V P K+ K G +W P
Sbjct: 38 SEDPALLFGGERAAMLSYADVTVSIPPKSVRKVGAVEWPKRLPVP 82
>gnl|CDD|213986 cd07431, PHP_PolIIIA, Polymerase and Histidinol Phosphatase domain
of alpha-subunit of bacterial polymerase III. PolIIIAs
that contain an N-terminal PHP domain have been
classified into four basic groups based on genome
composition, phylogenetic, and domain structural
analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. DNA
polymerase III holoenzyme is one of the five eubacterial
DNA polymerases that is responsible for the replication
of the DNA duplex. The alpha subunit of DNA polymerase
III core enzyme catalyzes the reaction for polymerizing
both DNA strands. The PolIIIA PHP domain has four
conserved sequence motifs and contains an invariant
histidine that is involved in metal ion coordination,
and like other PHP structures, exhibits a distorted
(beta/alpha) 7 barrel and coordinates up to 3 metals.
Initially, it was proposed that PHP region might be
involved in pyrophosphate hydrolysis, but such activity
has not been found. It has been shown that the PHP
domain of PolIIIA has a trinuclear metal complex and is
capable of proofreading activity.
Length = 179
Score = 26.4 bits (59), Expect = 8.5
Identities = 9/35 (25%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 108 IKASKEN--PALILMDNHETHQSMEAIEYCRASGI 140
+ +KE AL L D + + ++ + C+ +GI
Sbjct: 22 VARAKELGYSALALTDRNVLYGAVRFYKACKKAGI 56
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 0.133 0.406
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,966,039
Number of extensions: 1011242
Number of successful extensions: 837
Number of sequences better than 10.0: 1
Number of HSP's gapped: 834
Number of HSP's successfully gapped: 23
Length of query: 213
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 120
Effective length of database: 6,812,680
Effective search space: 817521600
Effective search space used: 817521600
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: 57 (25.7 bits)