RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1980
(100 letters)
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 30.7 bits (70), Expect = 0.079
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 45 LKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKA-RMAR 82
L+ LG +V VAGDI + EL L+A ++AR
Sbjct: 366 LRDLGGLVRVAGDIARSEGAELT---TAEHVLEAKKIAR 401
>gnl|CDD|214388 CHL00187, cysT, sulfate transport protein; Provisional.
Length = 237
Score = 30.0 bits (68), Expect = 0.14
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 14/75 (18%)
Query: 2 PFVVRTVQPKFLSRNNKLLDTAGSPLVKEGE----------LDAVINNTL---CNCLKQL 48
PFVVRT+QP +L + A S + + A++ + +
Sbjct: 150 PFVVRTIQPVLQEIEKELEEAAWSLGASPWQTFWKVIFPPLIPALLTGLALTFSRAIGEY 209
Query: 49 GSVVSVAGDI-FKQL 62
GS+V ++ +I FK L
Sbjct: 210 GSIVIISSNIPFKDL 224
>gnl|CDD|131194 TIGR02139, permease_CysT, sulfate ABC transporter, permease protein
CysT. This model represents CysT, one of two
homologous, tandem permeases in the sulfate ABC
transporter system; the other is CysW (TIGR02140). The
sulfate transporter has been described in E. coli as
transporting sulfate, thiosulfate, selenate, and
selenite. Sulfate transporters may also transport
molybdate ion if a specific molybdate transporter is not
present [Transport and binding proteins, Anions].
Length = 265
Score = 28.8 bits (65), Expect = 0.40
Identities = 9/10 (90%), Positives = 10/10 (100%)
Query: 1 MPFVVRTVQP 10
+PFVVRTVQP
Sbjct: 144 LPFVVRTVQP 153
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 28.0 bits (62), Expect = 0.75
Identities = 22/80 (27%), Positives = 29/80 (36%), Gaps = 1/80 (1%)
Query: 18 KLLDTAGSPLVKEGELDAVINNTLCNCLKQLGSVVSVAGDIF-KQLNEELVAVSEKTDAL 76
K+ D AG+ V+ L A L LG+ AGD K L L V + TD
Sbjct: 403 KVSDAAGAGAVETLGLSADAAANLATTFGTLGASAERAGDTLTKALLRLLDIVKKNTDGF 462
Query: 77 KARMARLNAHTEEFDPKLVT 96
+ E +VT
Sbjct: 463 ALGVTLDYLTGAEAQKLMVT 482
>gnl|CDD|182873 PRK10971, PRK10971, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 277
Score = 27.8 bits (62), Expect = 0.94
Identities = 9/10 (90%), Positives = 10/10 (100%)
Query: 1 MPFVVRTVQP 10
+PFVVRTVQP
Sbjct: 152 IPFVVRTVQP 161
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members of
this family from Pyrococcus horikoshii and Pyrococcus
abyssi each contain a predicted intein [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 608
Score = 27.5 bits (61), Expect = 1.1
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 27 LVKEGELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALK 77
+V+E + A + L L++LG +V AGDI K + V A K
Sbjct: 339 IVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKK 389
>gnl|CDD|233215 TIGR00969, 3a0106s02, sulfate ABC transporter, permease protein.
This model describes a subfamily of both CysT and CysW,
paralogous and generally tandemly encoded permease
proteins of the sulfate ABC transporter [Transport and
binding proteins, Anions].
Length = 271
Score = 26.9 bits (60), Expect = 1.5
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 1 MPFVVRTVQP 10
+PFVVR VQP
Sbjct: 154 LPFVVREVQP 163
>gnl|CDD|203973 pfam08542, Rep_fac_C, Replication factor C C-terminal domain.
This is the C-terminal domain of RFC (replication
factor-C) protein of the clamp loader complex which
binds to the DNA sliding clamp (proliferating cell
nuclear antigen, PCNA). The five modules of RFC
assemble into a right-handed spiral, which results in
only three of the five RFC subunits (RFC-A, RFC-B and
RFC-C) making contact with PCNA, leaving a wedge-shaped
gap between RFC-E and the PCNA clamp-loader complex.
The C-terminal is vital for the correct orientation of
RFC-E with respect to RFC-A.
Length = 89
Score = 26.3 bits (59), Expect = 1.5
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 55 AGDIFKQLNEELVAVSEKTDALKARMARLNAHTEE 89
A DI KQL+E L+ + D+LK + + A E
Sbjct: 37 AEDILKQLHEVLIR-LDIPDSLKLEIIKELAEIEH 70
>gnl|CDD|223629 COG0555, CysU, ABC-type sulfate transport system, permease
component [Posttranslational modification, protein
turnover, chaperones].
Length = 274
Score = 26.8 bits (60), Expect = 2.0
Identities = 20/77 (25%), Positives = 32/77 (41%), Gaps = 19/77 (24%)
Query: 1 MPFVVRTVQPKFLSRNNKLLDTAGS--------------PLVKEGELDAVINNTLC--NC 44
+PFVVRTVQP + + + A S PL+ L I L
Sbjct: 151 LPFVVRTVQPVLEEIDREYEEAARSLGASPLQTFRRVILPLLLPALLAGFI---LSFARS 207
Query: 45 LKQLGSVVSVAGDIFKQ 61
+ + G+V+ +AG+ +
Sbjct: 208 IGEFGAVLIIAGNTPYK 224
>gnl|CDD|223994 COG1067, LonB, Predicted ATP-dependent protease [Posttranslational
modification, protein turnover, chaperones].
Length = 647
Score = 26.5 bits (59), Expect = 2.6
Identities = 18/58 (31%), Positives = 28/58 (48%)
Query: 27 LVKEGELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKARMARLN 84
L++E A N L L+ LG++V AGDI +L+ + +AL+ R R
Sbjct: 347 LIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQKRELREG 404
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 26.4 bits (58), Expect = 2.6
Identities = 20/81 (24%), Positives = 28/81 (34%)
Query: 20 LDTAGSPLVKEGELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKAR 79
L +AG+ A + QLG + A QL + A A
Sbjct: 230 LPSAGAAGGDAVVDSAALKEFTDQVTGQLGVLARAARLDLGQLGLDDPAEKLPAATDTAL 289
Query: 80 MARLNAHTEEFDPKLVTVRFS 100
+ +NA E P+LV FS
Sbjct: 290 LDLVNAELGEDWPRLVAPVFS 310
>gnl|CDD|226629 COG4149, ModC, ABC-type molybdate transport system, permease
component [Inorganic ion transport and metabolism].
Length = 225
Score = 26.4 bits (59), Expect = 2.7
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 15/71 (21%)
Query: 2 PFVVRTVQPKFLSRNNKLLDTAGS--------------PLVKEGELDAVINNTLCNCLKQ 47
P +VR ++ F + + +L + A + PL G L VI + L +
Sbjct: 103 PLMVRPLRLAFEAIDRELEEAARTLGASRWEVFFRITLPLALPGILAGVI-LSFARALGE 161
Query: 48 LGSVVSVAGDI 58
G+ + AG+I
Sbjct: 162 FGATLMFAGNI 172
>gnl|CDD|233690 TIGR02025, BchH, magnesium chelatase, H subunit. This model
represents the H subunit of the magnesium chelatase
complex responsible for magnesium insertion into the
protoporphyrin IX ring in the biosynthesis of both
chlorophyll and bacteriochlorophyll. In
chlorophyll-utilizing species, this gene is known as
ChlH, while in bacteriochlorophyll-utilizing spoecies it
is called BchH. Subunit H is the largest (~140kDa) of
the three subunits (the others being BchD/ChlD and
BchI/ChlI), and is known to bind protoporphyrin IX.
Subunit H is homologous to the CobN subunit of
cobaltochelatase and by anology with that enzyme,
subunit H is believed to also bind the magnesium ion
which is inserted into the ring. In conjunction with the
hydrolysis of ATP by subunits I and D, a conformation
change is believed to happen in subunit H causing the
magnesium ion insertion into the distorted
protoporphyrin ring [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 1224
Score = 25.9 bits (57), Expect = 4.0
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 16/71 (22%)
Query: 32 ELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKARMARLNA--HTEE 89
ELD I + LG +V AGD + V E+ + L R+ R
Sbjct: 369 ELDGAIAPVI------LGGLVGEAGDA--------IPVQERLERLAGRVKRWVRLRKKPN 414
Query: 90 FDPKLVTVRFS 100
+ K+ V F+
Sbjct: 415 AEKKVAIVLFN 425
>gnl|CDD|180800 PRK07030, PRK07030, adenosylmethionine--8-amino-7-oxononanoate
transaminase; Provisional.
Length = 466
Score = 25.5 bits (56), Expect = 5.2
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 57 DIFKQLNEELVAVSEKTDALKARMARLNAHTEEFDPKLVTVR 98
DIF+Q N V E AL RMA AH + P + VR
Sbjct: 337 DIFEQDN-----VIENNRALARRMAEATAHLAD-HPHVAEVR 372
>gnl|CDD|193253 pfam12777, MT, Microtubule-binding stalk of dynein motor. the 380
kDa motor unit of dynein belongs to the AAA class of
chaperone-like ATPases. The core of the 380 kDa motor
unit contains a concatenated chain of six AAA modules,
of which four correspond to the ATP binding sites with
P-loop signatures described previously, and two are
modules in which the P loop has been lost in evolution.
This family is the region between D4 and D5 and is the
two predicted alpha-helical coiled coil segments that
form the stalk supporting the ATP-sensitive microtubule
binding component.
Length = 344
Score = 25.4 bits (55), Expect = 5.9
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 59 FKQLNEELVAVSEKTDALKARMARLNAHTEEF 90
++ N EL A EK +KA++A LNA+
Sbjct: 223 LEKANAELAAAQEKLARIKAKIAELNANLANL 254
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 25.1 bits (55), Expect = 7.5
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 59 FKQLNEELVAVSEKTDALKARMARLNAHTEE 89
K+L E+ V KT K + L+ EE
Sbjct: 159 LKELEAEIREVQLKTRTWKDLVKALDEAEEE 189
>gnl|CDD|234721 PRK00302, lnt, apolipoprotein N-acyltransferase; Reviewed.
Length = 505
Score = 24.8 bits (55), Expect = 8.6
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 1 MPFVVRTVQPKFLSRNNKLLDTAGSPLV 28
+PF++ + FL + L GS L+
Sbjct: 268 IPFLLEDLPQAFLKALDDLAREKGSALI 295
>gnl|CDD|214855 smart00851, MGS, MGS-like domain. This domain composes the whole
protein of methylglyoxal synthetase and the domain is
also found in Carbamoyl phosphate synthetase (CPS)
where it forms a regulatory domain that binds to the
allosteric effector ornithine. This family also
includes inosicase. The known structures in this family
show a common phosphate binding site.
Length = 91
Score = 24.4 bits (54), Expect = 8.9
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 4 VVRTVQPKFLSRNNKLLDTAGSPLVKEGELDAVINNT 40
VV+T+ PK ++LD L+K GE+D VIN
Sbjct: 33 VVKTLHPKVHGGIPQILD-----LIKNGEIDLVINTL 64
>gnl|CDD|224961 COG2050, PaaI, HGG motif-containing thioesterase, possibly involved
in aromatic compounds catabolism [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 141
Score = 24.7 bits (54), Expect = 9.7
Identities = 13/59 (22%), Positives = 17/59 (28%), Gaps = 11/59 (18%)
Query: 28 VKEGELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKARMARLNAH 86
VKEG++ A L V V ++ LVA A L
Sbjct: 93 VKEGDVTAE-----ARVLHLGRRVAVVEIEVKNDEGGRLVAKG------TGTYAVLRKR 140
>gnl|CDD|222709 pfam14362, DUF4407, Domain of unknown function (DUF4407). This
family of proteins is found in bacteria. Proteins in
this family are typically between 366 and 597 amino
acids in length. There is a single completely conserved
residue R that may be functionally important.
Length = 297
Score = 24.9 bits (55), Expect = 9.9
Identities = 16/62 (25%), Positives = 28/62 (45%)
Query: 29 KEGELDAVINNTLCNCLKQLGSVVSVAGDIFKQLNEELVAVSEKTDALKARMARLNAHTE 88
+ E++A C G+ V+ G ++K+ E+L A + + LKAR+ A E
Sbjct: 154 AQAEVNAAYQEAQCEAEGTGGTGVAGKGPVYKEKREKLDAAQARLETLKARLDAAIAQLE 213
Query: 89 EF 90
Sbjct: 214 AQ 215
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 0.132 0.365
Gapped
Lambda K H
0.267 0.0850 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,902,982
Number of extensions: 399678
Number of successful extensions: 549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 548
Number of HSP's successfully gapped: 41
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.0 bits)