RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy164
(161 letters)
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 81.7 bits (202), Expect = 2e-20
Identities = 47/137 (34%), Positives = 77/137 (56%), Gaps = 4/137 (2%)
Query: 19 DAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEIIVTCENPEFGNIALSRFLPIVS 78
+AF +FD G+ TI +E+GTV+R+LG PTEA++Q++I + G I FL +++
Sbjct: 15 EAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMA 74
Query: 79 GMISENRFQPASAEELLKAFRTLDKDNKSYLDKEYLTKLMIEEGEPFTPEEIDEMMSTAV 138
+ + S EE+ +AF+ D+D ++ L +M GE T EE+DEM+ A
Sbjct: 75 RKMKDTD----SEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREAD 130
Query: 139 DQDTGRIPYEYYINHIM 155
G+I YE ++ +M
Sbjct: 131 VDGDGQINYEEFVKMMM 147
Score = 30.5 bits (69), Expect = 0.23
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 11 NDFEKKIADAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEII 57
D E++I +AF +FD GN I E+ V+ LG T+ ++ E+I
Sbjct: 80 TDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMI 126
>gnl|CDD|227455 COG5126, FRQ1, Ca2+-binding protein (EF-Hand superfamily) [Signal
transduction mechanisms / Cytoskeleton / Cell division
and chromosome partitioning / General function
prediction only].
Length = 160
Score = 72.3 bits (178), Expect = 1e-16
Identities = 41/157 (26%), Positives = 76/157 (48%), Gaps = 5/157 (3%)
Query: 2 SLSEEVHITNDFEKKIADAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEIIVTCE 61
L +T + +++ +AF +FD + ID E+G +LR+LG P+EA+I ++
Sbjct: 7 DLLTFTQLTEEQIQELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEI- 65
Query: 62 NPEFGNIALSRFLPIVSGMISENRFQPASAEELLKAFRTLDKDNKSYLDKEYLTKLMIEE 121
+ + FL ++S + EEL +AF+ DKD+ Y+ L +++
Sbjct: 66 DAGNETVDFPEFL----TVMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELRRVLKSL 121
Query: 122 GEPFTPEEIDEMMSTAVDQDTGRIPYEYYINHIMKSE 158
GE + EE+++++ + G I YE + I S
Sbjct: 122 GERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKDSP 158
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 65.5 bits (160), Expect = 4e-14
Identities = 53/153 (34%), Positives = 80/153 (52%), Gaps = 5/153 (3%)
Query: 4 SEEVHITNDFEKKIADAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEIIVTCENP 63
SE +T D +K+I +AFD+FD G+ TID +E+ +R+LG P + +I+++I +
Sbjct: 6 SERPGLTEDQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKD 65
Query: 64 EFGNIALSRFLPIVSGMISENRFQPASAEELLKAFRTLDKDNKSYLDKEYLTKLMIEEGE 123
G I FL I++ + E EE+LKAFR D D + + L ++ E GE
Sbjct: 66 GSGKIDFEEFLDIMTKKLGERD----PREEILKAFRLFDDDKTGKISLKNLKRVAKELGE 121
Query: 124 PFTPEEIDEMMSTAVDQDTGRIPYEYYINHIMK 156
T EE+ EM+ A G I E + IMK
Sbjct: 122 TITDEELQEMIDEADRNGDGEISEEEFYR-IMK 153
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse superfamily
of calcium sensors and calcium signal modulators; most
examples in this alignment model have 2 active canonical
EF hands. Ca2+ binding induces a conformational change
in the EF-hand motif, leading to the activation or
inactivation of target proteins. EF-hands tend to occur
in pairs or higher copy numbers.
Length = 63
Score = 42.5 bits (101), Expect = 2e-06
Identities = 23/57 (40%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 93 ELLKAFRTLDKDNKSYLDKEYLTKLMIEEGEPFTPEEIDEMMSTAVDQD-TGRIPYE 148
EL +AFR DKD + + L + GE + EEIDEM+ VD+D G+I +E
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIR-EVDKDGDGKIDFE 56
Score = 34.4 bits (80), Expect = 0.002
Identities = 15/42 (35%), Positives = 26/42 (61%)
Query: 16 KIADAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEII 57
++ +AF +FD G+ TI E+ L++LG +E +I E+I
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMI 42
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 31.8 bits (73), Expect = 0.012
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 16 KIADAFDIFDHAGNKTIDCREVGTVLRALG 45
++ +AF +FD G+ I E+ LR+LG
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
Score = 29.1 bits (66), Expect = 0.12
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 93 ELLKAFRTLDKDNKSYLDKEYLTKLMIEEG 122
EL +AF+ DKD Y+ E L K + G
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 32.3 bits (74), Expect = 0.015
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 99 RTLDKDNKSYLDKEYLTKLMIEEGEPFTPEEIDEMMSTA---VDQD-TGRIPYE 148
+ LDKD Y+D E L KL+ G T EE++E++ +D+D GRI +E
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFE 54
Score = 25.0 bits (55), Expect = 6.8
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 22 DIFDHAGNKTIDCREVGTVLRALGGCPTEADIQEII 57
+ D G+ ID E+ +L+ALG T+ +++E+I
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELI 36
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 30.9 bits (70), Expect = 0.29
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 111 KEYLTKLMIEEGEPFTPEEIDEMMSTAVDQDTGRIPYEY 149
++ +TK +I EG+ F +E + V I +Y
Sbjct: 316 RDRITKPLIREGDRFREVSWEEALDL-VASRLREIKEKY 353
>gnl|CDD|180843 PRK07108, PRK07108, acetyl-CoA acetyltransferase; Provisional.
Length = 392
Score = 29.0 bits (65), Expect = 1.0
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 9/44 (20%)
Query: 51 ADIQEIIVTCENPEFG-------NIALSRFLPI-VSGMISENRF 86
A+++++I+ C NPE IAL LP+ V GM + NRF
Sbjct: 47 AEVEDVIMGCANPEGATGANIARQIALRAGLPVTVPGM-TVNRF 89
>gnl|CDD|200946 pfam00036, efhand, EF hand. The EF-hands can be divided into two
classes: signaling proteins and buffering/transport
proteins. The first group is the largest and includes
the most well-known members of the family such as
calmodulin, troponin C and S100B. These proteins
typically undergo a calcium-dependent conformational
change which opens a target binding site. The latter
group is represented by calbindin D9k and do not undergo
calcium dependent conformational changes.
Length = 29
Score = 26.3 bits (59), Expect = 1.1
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 93 ELLKAFRTLDKDNKSYLDKEYLTKLM 118
EL +AF+ DKD + E +L+
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELL 26
>gnl|CDD|188638 cd00951, KDGDH, 5-dehydro-4-deoxyglucarate dehydratase, also called
5-keto-4-deoxy-glucarate dehydratase (KDGDH).
5-dehydro-4-deoxyglucarate dehydratase, also called
5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is
member of dihydrodipicolinate synthase (DHDPS) family
that comprises several pyruvate-dependent class I
aldolases. The enzyme is involved in glucarate
metabolism, and its mechanism presumbly involves a
Schiff-base intermediate similar to members of DHDPS
family. While in the case of Pseudomonas sp.
5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to
2,5-dioxopentanoate, in certain species of
Enterobacteriaceae it is degraded instead to pyruvate
and glycerate.
Length = 289
Score = 28.4 bits (64), Expect = 1.4
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 122 GEPF--TPEEIDEMMSTAVDQDTGRIP 146
GE F TP+E +++ AV++ GR+P
Sbjct: 45 GEFFSLTPDEYAQVVRAAVEETAGRVP 71
>gnl|CDD|232861 TIGR00181, pepF, oligoendopeptidase F. This family represents the
oligoendopeptidase F clade of the family of larger M3 or
thimet (for thiol-dependent metallopeptidase)
oligopeptidase family. Lactococcus lactis PepF
hydrolyzed peptides of 7 and 17 amino acids with fairly
broad specificity. The homolog of lactococcal PepF in
group B Streptococcus was named PepB (PMID:8757883),
with the name difference reflecting a difference in
species of origin rather activity; substrate profiles
were quite similar. Differences in substrate specificity
should be expected in other species. The gene is
duplicated in Lactococcus lactis on the plasmid that
bears it. A shortened second copy is found in Bacillus
subtilis [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 591
Score = 28.8 bits (65), Expect = 1.5
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 112 EYLTKLMIEEGEPFTPEEIDEMM 134
EY +IEEGEP T E ++E+
Sbjct: 461 EYEAYELIEEGEPLTAETLNEIY 483
>gnl|CDD|189015 cd09608, M3B_PepF_3, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 538
Score = 28.6 bits (65), Expect = 1.5
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 14/53 (26%)
Query: 112 EYLTKLMIEEGEPFTPEEIDEMM----------STAVDQDTG----RIPYEYY 150
E ++E+GEP T E + E+ VD++ RIP+ YY
Sbjct: 411 EKEIHELVEKGEPLTAEVLSEIYADLNKKYYGDDVVVDEEIAYEWARIPHFYY 463
>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif. EF-hands are
calcium-binding motifs that occur at least in pairs.
Links between disease states and genes encoding
EF-hands, particularly the S100 subclass, are emerging.
Each motif consists of a 12 residue loop flanked on
either side by a 12 residue alpha-helix. EF-hands
undergo a conformational change unpon binding calcium
ions.
Length = 29
Score = 25.8 bits (58), Expect = 1.6
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 93 ELLKAFRTLDKDNKSYLDKEYLTKLM 118
EL +AFR DKD +D E L+
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLL 26
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 28.1 bits (63), Expect = 2.0
Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 87 QPASAEELLKAFRTLDKDNKSYLDKEYLTKLMIEEGEPFTPEEIDEMMSTAVDQDTGR 144
Q A +LL+ DN YL+ +++E + +E E + A+ D
Sbjct: 321 QYDEALKLLQPLIAAQPDNPYYLE--LAGDILLEANK---AKEAIERLKKALALDPNS 373
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 28.3 bits (64), Expect = 2.1
Identities = 25/95 (26%), Positives = 35/95 (36%), Gaps = 13/95 (13%)
Query: 40 VLRALGGCPTEADIQEII-VTCENPEFGNIALSRF-----LPIVSGMISENRFQPASAEE 93
+L AL E + E+ + E IAL I G + EE
Sbjct: 79 LLNALKDG-GEVSLDELKEALLDKKEV-GIALGNLARKGWAKIEKGKVILKPDAYEDPEE 136
Query: 94 -LLKAFRTLDKDNKSYLDKEYLTKL----MIEEGE 123
LKA DK+ S D + L +L ++EE E
Sbjct: 137 KALKALAEGDKEELSEEDLKVLKELKKRKLVEEKE 171
>gnl|CDD|235141 PRK03620, PRK03620, 5-dehydro-4-deoxyglucarate dehydratase;
Provisional.
Length = 303
Score = 27.9 bits (63), Expect = 2.2
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 122 GEPF--TPEEIDEMMSTAVDQDTGRIP 146
GE F TP+E +++ AV+ GR+P
Sbjct: 52 GEFFSLTPDEYSQVVRAAVETTAGRVP 78
>gnl|CDD|178914 PRK00173, rph, ribonuclease PH; Reviewed.
Length = 238
Score = 27.8 bits (63), Expect = 2.6
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 5/25 (20%)
Query: 118 MIE-----EGEPFTPEEIDEMMSTA 137
+E EG PF+ EE+D ++ A
Sbjct: 197 FVEVQGTAEGAPFSREELDALLDLA 221
>gnl|CDD|224086 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 27.7 bits (62), Expect = 2.8
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 112 EYLTKLMIEEGEPFTPEEIDEMM--------STAVDQDTGRIPYEYYINHI 154
E+ +IEEGE T EE++E+ AV D I H
Sbjct: 463 EHRVHELIEEGEELTAEELNELYLELQKEYYGDAVKLDELSGLEWARIPHF 513
>gnl|CDD|215238 PLN02435, PLN02435, probable UDP-N-acetylglucosamine
pyrophosphorylase.
Length = 493
Score = 27.9 bits (62), Expect = 3.0
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 129 EIDEMMSTAVDQDTGRIPY 147
E+D+ M++A++Q TGR+ Y
Sbjct: 326 ELDQAMASAINQQTGRLRY 344
>gnl|CDD|215160 PLN02286, PLN02286, arginine-tRNA ligase.
Length = 576
Score = 27.7 bits (62), Expect = 3.4
Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 48 PTEADIQEIIVTCENPEFGNIALSRFLPIVS---GMISENRFQPASAEELLKAF 98
P E ++ ++ C NP+FG+ + + + S G + + A A+ ++K
Sbjct: 16 PDEPSVEPLVAACTNPKFGDYQCNNAMGLWSKLKGKGTSFKNPRAVAQAIVKNL 69
>gnl|CDD|215434 PLN02813, PLN02813, pfkB-type carbohydrate kinase family protein.
Length = 426
Score = 27.1 bits (60), Expect = 4.3
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 28 GNKTIDCREVGTVLRALGGCPTEA 51
K I+ E G VLRAL GC +A
Sbjct: 100 TRKVINHEERGKVLRALDGCSYKA 123
>gnl|CDD|219990 pfam08726, efhand_Ca_insen, Ca2+ insensitive EF hand. EF hands are
helix-loop-helix binding motifs involved in the
regulation of many cellular processes. EF hands usually
bind to Ca2+ ions which causes a major conformational
change that allows the protein to interact with its
designated targets. This domain corresponds to an EF
hand which has partially or entirely lost its
calcium-binding properties. The calcium insensitive EF
hand is still able to mediate protein-protein
recognition.
Length = 69
Score = 25.3 bits (56), Expect = 6.2
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 90 SAEELLKAFRTLDKDNKSYLDKEYLTKLMIEEGEPFTPEEIDEMMST 136
+AE++ ++FR L + K Y+T+ + TPE+ + ++
Sbjct: 4 TAEQVEQSFRALAE------GKPYVTEEDLRRA--LTPEQAEYCIAR 42
>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and
dynamics].
Length = 91
Score = 25.8 bits (57), Expect = 6.3
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 19 DAFDIFDHAGNKTIDCREVGTVLRALG 45
DA ++ +HA KT+ ++ L+ LG
Sbjct: 59 DAVELAEHAKRKTVKAEDIKLALKRLG 85
>gnl|CDD|237076 PRK12362, PRK12362, germination protease; Provisional.
Length = 318
Score = 26.3 bits (59), Expect = 6.8
Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 15/70 (21%)
Query: 80 MISENRFQPASAEELLKAFRTLDKDNKSYLDKE----YLTKLMIEEGEPFTPEEIDEMMS 135
++ E Q E ++L+++ K L KE Y+ L++ TP+EIDE++
Sbjct: 245 VLDELINQSEEGSEFYNMLKSLNQEEKQQLIKEVLSPYVGNLIV------TPKEIDELI- 297
Query: 136 TAVDQDTGRI 145
++ +I
Sbjct: 298 ----ENLSKI 303
>gnl|CDD|239975 cd04602, CBS_pair_IMPDH_2, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the inosine 5' monophosphate dehydrogenase (IMPDH)
protein. IMPDH is an essential enzyme that catalyzes
the first step unique to GTP synthesis, playing a key
role in the regulation of cell proliferation and
differentiation. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The
interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is
unknown. Mutations of conserved residues within this
domain in IMPDH have been associated with retinitis
pigmentosa.
Length = 114
Score = 25.6 bits (57), Expect = 7.1
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 4/50 (8%)
Query: 9 ITND----FEKKIADAFDIFDHAGNKTIDCREVGTVLRALGGCPTEADIQ 54
IT+ + +AD +I + G I E G L G T DI
Sbjct: 1 ITDPSVLSPDHTVADVLEIKEKKGFSGIPVTEDGKSGGKLLGIVTSRDID 50
>gnl|CDD|213706 TIGR02362, dhaK1b, probable dihydroxyacetone kinase DhaK1b subunit.
Two types of dihydroxyacetone kinase (glycerone kinase)
are described. In yeast and a few bacteria, e.g.
Citrobacter freundii, the enzyme is a single chain that
uses ATP as phosphoryl donor and is designated EC
2.7.1.29. By contract, E. coli and many other bacterial
species have a multisubunit form with a phosphoprotein
donor related to PTS transport proteins. This family
represents a protein, unique to the Firmicutes (low GC
Gram-positives), that appears to be a divergent second
copy of the K subunit of that complex; its gene is
always found in operons with the other three proteins of
the complex.
Length = 326
Score = 26.3 bits (58), Expect = 9.0
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 76 IVSGMISENRFQPASAEELLKAFRTLDK 103
++S I + F P +A+++L+A R +D+
Sbjct: 65 MLSAAIMGDVFVPPTAQDILEAIRQVDR 92
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
0.316 0.135 0.383
Gapped
Lambda K H
0.267 0.0908 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,562,989
Number of extensions: 804641
Number of successful extensions: 1090
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1079
Number of HSP's successfully gapped: 54
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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 (21.6 bits)
S2: 55 (24.6 bits)