RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10243
(201 letters)
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 108 bits (272), Expect = 2e-30
Identities = 46/73 (63%), Positives = 60/73 (82%)
Query: 128 RVKDVESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLG 187
++KD +S EE+ EAF+VFD+DG+G I+ AELRHVMTNLGEKLT+EEVD MI AD +G G
Sbjct: 76 KMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDG 135
Query: 188 YIRYEDFVQVMLR 200
I YE+FV++M+
Sbjct: 136 QINYEEFVKMMMS 148
Score = 62.5 bits (152), Expect = 1e-12
Identities = 31/68 (45%), Positives = 40/68 (58%)
Query: 133 ESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYE 192
E E EAF +FDKDGDG I EL VM +LG+ TE E+ MI D +G G I +
Sbjct: 8 EQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFP 67
Query: 193 DFVQVMLR 200
+F+ +M R
Sbjct: 68 EFLTLMAR 75
>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 = 82.4 bits (204), Expect = 4e-20
Identities = 32/73 (43%), Positives = 53/73 (72%)
Query: 128 RVKDVESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLG 187
++K + EEL EAF++FDKD DG I++ ELR V+ +LGE+L++EEV+ ++ D++G G
Sbjct: 84 KLKRGDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDG 143
Query: 188 YIRYEDFVQVMLR 200
I YE+F +++
Sbjct: 144 EIDYEEFKKLIKD 156
Score = 50.4 bits (121), Expect = 4e-08
Identities = 22/63 (34%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 136 EELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYEDFV 195
+EL EAF++FD+D DG+I+ EL ++ +LG +E E++ + D G + + +F+
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEID-AGNETVDFPEFL 78
Query: 196 QVM 198
VM
Sbjct: 79 TVM 81
>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 = 75.7 bits (187), Expect = 1e-18
Identities = 33/62 (53%), Positives = 47/62 (75%)
Query: 137 ELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYEDFVQ 196
EL EAFR+FDKDGDG I+ EL+ + +LGE L+EEE+D MI D++G G I +E+F++
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLE 60
Query: 197 VM 198
+M
Sbjct: 61 LM 62
Score = 34.8 bits (81), Expect = 0.003
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 134 SGEELLEAFRVFDKDGDGIINVAELRHVMT 163
S EE+ E R DKDGDG I+ E +M
Sbjct: 34 SEEEIDEMIREVDKDGDGKIDFEEFLELMA 63
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 64.3 bits (157), Expect = 2e-13
Identities = 29/66 (43%), Positives = 43/66 (65%)
Query: 133 ESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYE 192
+ EE+L+AFR+FD D G I++ L+ V LGE +T+EE+ MI AD+ G G I E
Sbjct: 87 DPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEE 146
Query: 193 DFVQVM 198
+F ++M
Sbjct: 147 EFYRIM 152
Score = 54.3 bits (131), Expect = 1e-09
Identities = 27/63 (42%), Positives = 42/63 (66%)
Query: 136 EELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYEDFV 195
+E+ EAF +FD DG G I+ EL+ M +LG + +EE+ MIA D++G G I +E+F+
Sbjct: 17 KEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFL 76
Query: 196 QVM 198
+M
Sbjct: 77 DIM 79
Score = 36.2 bits (84), Expect = 0.003
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 136 EELLEAFRVFDKDGDGIINVAELRHVMTN-LGEKLTEEEVDAMIAVADQEGLGYI 189
EE+ + DKDG G I+ E +MT LGE+ EE+ + D + G I
Sbjct: 53 EEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKI 107
Score = 28.1 bits (63), Expect = 2.1
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 134 SGEELLEAFRVFDKDGDGIINVAELRHVMTN 164
+ EEL E D++GDG I+ E +M
Sbjct: 124 TDEELQEMIDEADRNGDGEISEEEFYRIMKK 154
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 52.9 bits (128), Expect = 4e-10
Identities = 19/52 (36%), Positives = 29/52 (55%)
Query: 149 GDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYEDFVQVMLR 200
G+I EL+ + LG L+EEEVD + D +G G I +E+F ++ R
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEEFCVLLQR 52
Score = 26.3 bits (59), Expect = 2.1
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 136 EELLEAFRVFDKDGDGIINVAELRHVMTNL 165
EE+ FR FD DGDG I+ E ++ L
Sbjct: 24 EEVDILFREFDTDGDGKISFEEFCVLLQRL 53
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 52.4 bits (126), Expect = 1e-09
Identities = 27/60 (45%), Positives = 41/60 (68%), Gaps = 4/60 (6%)
Query: 143 RVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAV----ADQEGLGYIRYEDFVQVM 198
++ DKDGDG I+V ELR ++ LG KLT+EEV+ +I D++G G I +E+F++ M
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 27.7 bits (62), Expect = 0.90
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 127 YRVKDVESGEELLEAFRVFDKDGDGIINVAELRHVM 162
++ D E E + F DKDGDG I+ E M
Sbjct: 25 LKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 42.6 bits (101), Expect = 2e-06
Identities = 18/30 (60%), Positives = 23/30 (76%)
Query: 137 ELLEAFRVFDKDGDGIINVAELRHVMTNLG 166
EL EAF++FDKDGDG I+ ELR + +LG
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
>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 = 41.6 bits (99), Expect = 5e-06
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 137 ELLEAFRVFDKDGDGIINVAELRHVMTNL 165
EL EAFR+FDKDGDG I+ E + ++ L
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 28.1 bits (64), Expect = 0.29
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 173 EVDAMIAVADQEGLGYIRYEDFVQVM 198
E+ + D++G G I +E+F ++
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLL 26
>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 = 41.3 bits (98), Expect = 5e-06
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 137 ELLEAFRVFDKDGDGIINVAELRHVMTNL 165
EL EAF+ FDKDGDG I+ E + ++ L
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 26.3 bits (59), Expect = 1.3
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 173 EVDAMIAVADQEGLGYIRYEDFVQVM 198
E+ D++G G I +E+F +++
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELL 26
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 36.1 bits (85), Expect = 3e-04
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 140 EAFRVFDKDGDGIINVAELRHVM 162
+ FR FD +GDG I+ EL+ ++
Sbjct: 3 DLFRQFDTNGDGKISKEELKRLL 25
>gnl|CDD|216832 pfam01990, ATP-synt_F, ATP synthase (F/14-kDa) subunit. This
family includes 14-kDa subunit from vATPases, which is
in the peripheral catalytic part of the complex. The
family also includes archaebacterial ATP synthase
subunit F.
Length = 92
Score = 32.6 bits (75), Expect = 0.025
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 128 RVKDVESGEELLEAFRVFDKDGD-GIINVAELRHVMTNLGEKLTEEEVD--AMIAVADQE 184
V V S EE EAF + D GII + E + + E + E A++ + ++
Sbjct: 19 GVVYVVSPEEAEEAFEELLEREDIGIILITE--DIAEEIRETIDRYESVLPAILEIPSKD 76
Query: 185 GLGYIRYEDFVQVMLR 200
G Y +D V+ ++R
Sbjct: 77 G-PYGPGKDSVRELVR 91
>gnl|CDD|217299 pfam02949, 7tm_6, 7tm Odorant receptor. This family is composed of
7 transmembrane receptors, that are probably drosophila
odorant receptors.
Length = 313
Score = 33.4 bits (77), Expect = 0.062
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 46 DCNRRVVQSLIASEWYRCSPDTRRCLLMTLRQAQMPGHLRFMCGLVRLDLGFMINVLRFS 105
+ + + ++ +S WY S RR LL+ + +AQ P ++ G + L I++L+F+
Sbjct: 254 EASEELANAIYSSNWYDASRRYRRTLLIFIMRAQRPITIKAG-GFFPISLPTFISILKFA 312
>gnl|CDD|238009 cd00052, EH, Eps15 homology domain; found in proteins implicated in
endocytosis, vesicle transport, and signal transduction.
The alignment contains a pair of EF-hand motifs,
typically one of them is canonical and binds to Ca2+,
while the other may not bind to Ca2+. A hydrophobic
binding pocket is formed by residues from both EF-hand
motifs. The EH domain binds to proteins containing NPF
(class I), [WF]W or SWG (class II), or H[TS]F (class
III) sequence motifs.
Length = 67
Score = 28.7 bits (65), Expect = 0.37
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 140 EAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLGYIRYEDFVQVM 198
+ FR D DGDG+I+ E R + G L + + +AD + G + E+F M
Sbjct: 3 QIFRSLDPDGDGLISGDEARPFLGKSG--LPRSVLAQIWDLADTDKDGKLDKEEFAIAM 59
>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 = 27.2 bits (61), Expect = 1.5
Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 15/75 (20%)
Query: 131 DVESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVD----AMIAVAD---Q 183
D ++ E++ ++FR +G + +LR LT E+ + M + +
Sbjct: 1 DTDTAEQVEQSFRAL-AEGKPYVTEEDLRR-------ALTPEQAEYCIARMPPYSGPDGR 52
Query: 184 EGLGYIRYEDFVQVM 198
G Y F++ +
Sbjct: 53 SVPGAYDYISFMEAL 67
>gnl|CDD|178309 PLN02707, PLN02707, Soluble inorganic pyrophosphatase.
Length = 267
Score = 29.0 bits (65), Expect = 1.6
Identities = 13/33 (39%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 119 CLKMYNTEYRVKDVESGEELLEAFRVFDKDGDG 151
C N Y V+ E GE +RVF DG G
Sbjct: 24 CASAVNAAYAVE--EEGEAETLDYRVFFSDGSG 54
>gnl|CDD|239455 cd03339, TCP1_epsilon, TCP-1 (CTT or eukaryotic type II) chaperonin
family, epsilon subunit. Chaperonins are involved in
productive folding of proteins. They share a common
general morphology, a double toroid of 2 stacked rings.
In contrast to bacterial group I chaperonins (GroEL),
each ring of the eukaryotic cytosolic chaperonin (CTT)
consists of eight different, but homologous subunits.
Their common function is to sequester nonnative proteins
inside their central cavity and promote folding by using
energy derived from ATP hydrolysis. The best studied in
vivo substrates of CTT are actin and tubulin.
Length = 526
Score = 28.8 bits (65), Expect = 2.3
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 13/61 (21%)
Query: 132 VESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEK--------LTEEEVDAMIAVADQ 183
VE EE+ + + + +I A MT+LG K E VDA+++VAD
Sbjct: 136 VEHLEEIADKIEFSPDNKEPLIQTA-----MTSLGSKIVSRCHRQFAEIAVDAVLSVADL 190
Query: 184 E 184
E
Sbjct: 191 E 191
>gnl|CDD|215918 pfam00435, Spectrin, Spectrin repeat. Spectrin repeat-domains are
found in several proteins involved in cytoskeletal
structure. These include spectrin, alpha-actinin and
dystrophin. The sequence repeat used in this family is
taken from the structural repeat in reference. The
spectrin domain- repeat forms a three helix bundle. The
second helix is interrupted by proline in some
sequences. The repeats are defined by a characteristic
tryptophan (W) residue at position 17 in helix A and a
leucine (L) at 2 residues from the carboxyl end of helix
C. Although the domain occurs in ultiple repeats along
sequences, the domains are actually stable on their own
- ie they act, biophysically, like domains rather than
repeats that along function when aggregated.
Length = 105
Score = 27.3 bits (61), Expect = 2.8
Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 121 KMYNTEYRVKDVESGEELLEAFRVFDKDGDGIINVAE--LRHVMTNLGEKLTEEEVDAMI 178
+ ++E KD+ES + LL+ + + + + + + + L EKL E A
Sbjct: 22 ALLSSEDYGKDLESVQALLKKHKALEAE----LAAHQDRVEALNE-LAEKLIAEGHYASE 76
Query: 179 AVADQ 183
+ ++
Sbjct: 77 EIQER 81
>gnl|CDD|214893 smart00896, FDX-ACB, Ferredoxin-fold anticodon binding domain.
This is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold, consisting of an alpha+beta sandwich
with anti-parallel beta-sheets (beta-alpha-beta x2).
Length = 93
Score = 27.0 bits (61), Expect = 2.9
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 133 ESGEELLEAFRVFD----KDGDGIINVAELRHVMTNLGEKLTEEEVDAMIA 179
E+G +LLE R+FD +G ++A R + LT+EEV+A+
Sbjct: 29 EAGGDLLEDVRLFDVYEGGIPEGKKSLA-YRLTYQSPDRTLTDEEVNAIHD 78
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin
is an insoluble storage polymer for carbon, nitrogen,
and energy, found in most Cyanobacteria. The polymer
has a backbone of L-aspartic acid, with most Asp side
chain carboxyl groups attached to L-arginine. The
polymer is made by this enzyme, cyanophycin synthetase,
and degraded by cyanophycinase. Heterologously
expressed cyanophycin synthetase in E. coli produces a
closely related, water-soluble polymer with some Arg
replaced by Lys. It is unclear whether enzymes that
produce soluble cyanophycin-like polymers in vivo in
non-Cyanobacterial species should be designated as
cyanophycin synthetase itself or as a related enzyme.
This model makes the designation as cyanophycin
synthetase. Cyanophycin synthesis is analogous to
polyhydroxyalkanoic acid (PHA) biosynthesis, except
that PHA polymers lack nitrogen and may be made under
nitrogen-limiting conditions [Cellular processes,
Biosynthesis of natural products].
Length = 864
Score = 28.2 bits (63), Expect = 3.5
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 35 LHLTLESEKLDDC--------NRRVVQSLIASEWYRCSPDTRRCLLMTLRQAQMPGHL 84
+ + ++ E L+D R+V+ L + + CSP R L LR+ GH+
Sbjct: 20 IEMRVDIEDLEDFPSNEIPGFYERLVEWLPSLIEHYCSPGVRGGFLQRLREGTYMGHI 77
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 27.8 bits (62), Expect = 4.4
Identities = 17/34 (50%), Positives = 20/34 (58%)
Query: 154 NVAELRHVMTNLGEKLTEEEVDAMIAVADQEGLG 187
NVAE+R V+ L EKL E VDA A A + L
Sbjct: 93 NVAEIRAVLMFLLEKLPRERVDAADAEAVSQPLS 126
>gnl|CDD|163649 cd07406, MPP_CG11883_N, Drosophila melanogaster CG11883 and related
proteins, N-terminal metallophosphatase domain. CG11883
is an uncharacterized Drosophila melanogaster UshA-like
protein with two domains, an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 257
Score = 27.6 bits (62), Expect = 4.6
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 144 VFDKDGDGIINVAELRHVMTNLGEK-----LTEEEVDAMIAVADQEGLGYIRYEDFVQVM 198
VFD G G + + ++ G K L EEE + + D E Y+RY D+V+
Sbjct: 105 VFDATGGGPLPNGKESAIIERAGVKIGLLGLVEEEWLETLTI-DPE---YVRYRDYVETA 160
Query: 199 LR 200
Sbjct: 161 RE 162
>gnl|CDD|234019 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat
protein TolB. Members of this protein family are the
TolB periplasmic protein of Gram-negative bacteria. TolB
is part of the Tol-Pal (peptidoglycan-associated
lipoprotein) multiprotein complex, comprising five
envelope proteins, TolQ, TolR, TolA, TolB and Pal, which
form two complexes. The TolQ, TolR and TolA
inner-membrane proteins interact via their transmembrane
domains. The {beta}-propeller domain of the periplasmic
protein TolB is responsible for its interaction with
Pal. TolB also interacts with the outer-membrane
peptidoglycan-associated proteins Lpp and OmpA. TolA
undergoes a conformational change in response to changes
in the proton-motive force, and interacts with Pal in an
energy-dependent manner. The C-terminal periplasmic
domain of TolA also interacts with the N-terminal domain
of TolB. The Tol-PAL system is required for bacterial
outer membrane integrity. E. coli TolB is involved in
the tonB-independent uptake of group A colicins
(colicins A, E1, E2, E3 and K), and is necessary for the
colicins to reach their respective targets after initial
binding to the bacteria. It is also involved in uptake
of filamentous DNA. Study of its structure suggest that
the TolB protein might be involved in the recycling of
peptidoglycan or in its covalent linking with
lipoproteins. The Tol-Pal system is also implicated in
pathogenesis of E. coli, Haemophilus ducreyi ,
Salmonella enterica and Vibrio cholerae, but the
mechanism(s) is unclear [Transport and binding proteins,
Other, Cellular processes, Pathogenesis].
Length = 417
Score = 27.6 bits (62), Expect = 5.1
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 16/82 (19%)
Query: 123 YNTEYRVKDVESGEELLEAFRVFDKDGDGIINVAELRHVMTNLG----EKLTEEEVDAM- 177
Y +R+ DV SG+ L + + ++LR V + EKLT E
Sbjct: 104 YTVRFRLYDVVSGQLQLLGKQY-------TVTASQLRRVAHRIADAIYEKLTGERGAFST 156
Query: 178 -IAVADQEGLGYIRYEDFVQVM 198
IA + G G RYE +QV
Sbjct: 157 RIAYVSKSGKGR-RYE--LQVA 175
>gnl|CDD|202554 pfam03147, FDX-ACB, Ferredoxin-fold anticodon binding domain. This
is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold.
Length = 94
Score = 26.3 bits (59), Expect = 5.5
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 133 ESGEELLEAFRVFD-----KDGDGIINVAELRHVMTNLGEKLTEEEVDAMI 178
++G ELLE +FD K +G ++A R + LT+EEV+A+
Sbjct: 29 KAGGELLEDVELFDVYRGKKIPEGKKSLA-FRLTFQSPERTLTDEEVNAIH 78
>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 = 27.1 bits (60), Expect = 6.9
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 123 YNTE-YRVKDVESGEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIAVA 181
YN+ Y V+D + +L+ FR+ K+ ++ H+ NL E L+E+ ++ VA
Sbjct: 463 YNSYFYVVED--NSTNVLDKFRLHGKEMIEYLDGGSALHL--NLDESLSEDGYRKLVRVA 518
Query: 182 DQEGLGY 188
G Y
Sbjct: 519 ADTGCNY 525
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 27.1 bits (60), Expect = 7.1
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 134 SGEELLEAFRVFDKDGDGIINVAEL 158
+ + E F+ D +GDG++ + EL
Sbjct: 213 AANKKEELFKAADLNGDGVVTIDEL 237
>gnl|CDD|211329 cd02555, PSSA_1, Pseudouridine synthase, a subgroup of the RsuA
family. This group is comprised of bacterial proteins
assigned to the RsuA family of pseudouridine synthases.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required. The
TruA family is comprised of proteins related to
Escherichia coli RsuA.
Length = 177
Score = 26.6 bits (59), Expect = 7.7
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 71 LLMTLRQAQMPGHLRFMCGLVRLDL 95
L L++ Q PG +R MC V L++
Sbjct: 124 LRFALKEPQ-PGQIRRMCESVGLEV 147
>gnl|CDD|143584 cd07313, terB_like_2, tellurium resistance terB-like protein,
subgroup 2. This family includes several
uncharacterized bacterial proteins. Protein sequence
homology analysis shows they are similar to tellurium
resistance protein terB, but the function of this family
is unknown.
Length = 104
Score = 25.9 bits (58), Expect = 8.1
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 150 DGIINVAELRHVMTNLGEK--LTEEEVDAMIAVADQEGLGYIRYEDFVQV 197
DG + E + L E+ L EE ++A A+ +F +
Sbjct: 13 DGEYDEEERAAIDRLLAERFGLDAEEAAELLAEAEALEEEAPDLYEFTSL 62
>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 27.0 bits (61), Expect = 8.2
Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 31/97 (31%)
Query: 102 LRFSLTFVNFVMITLSGCLKMYNTEYRVKDVESGEELLEAFRVFDK--DGDGIINVAELR 159
LRF L V+ T+ KD F+VF + G V +R
Sbjct: 290 LRFGLELVDV-------------TDL-FKDSG--------FKVFAGAANDGGR--VKAIR 325
Query: 160 HVMTNLGEKLTEEEVDAMIAVADQE---GLGYIRYED 193
+ +L+ +++D + A GL YI+ +
Sbjct: 326 --VPGGAAQLSRKQIDELTEFAKIYGAKGLAYIKVNE 360
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 27.1 bits (60), Expect = 8.4
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 145 FDKDGDGIINVAELRH--------VMTNLGEKLTEEEVDAMIAVADQ 183
FD D +GI+NV+ +TN +L++ ++D M+ A++
Sbjct: 480 FDIDANGILNVSAEDKSTGKSNKITITNDKGRLSKADIDRMVNEAEK 526
>gnl|CDD|237693 PRK14368, PRK14368, Maf-like protein; Provisional.
Length = 193
Score = 26.3 bits (58), Expect = 9.7
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 135 GEELLEAFRVFDKDGDGIINVAELRHVMTNLGEKLTEEEVDAMIA 179
E++ F V+D++ DG + A V + L +EE+ IA
Sbjct: 102 PHEVITGFAVYDRERDGCVTKAVRTKVFF---KPLRDEEIRDYIA 143
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 26.9 bits (60), Expect = 9.8
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 7/46 (15%)
Query: 145 FDKDGDGIINVAEL-------RHVMTNLGEKLTEEEVDAMIAVADQ 183
FD D +GI+ V+ + V L+E+EV+ MI A+
Sbjct: 471 FDIDANGILQVSATDRTTGREQSVTIQGASTLSEQEVNRMIQEAEA 516
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
0.328 0.142 0.418
Gapped
Lambda K H
0.267 0.0879 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,396,580
Number of extensions: 984965
Number of successful extensions: 1536
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1521
Number of HSP's successfully gapped: 62
Length of query: 201
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 109
Effective length of database: 6,857,034
Effective search space: 747416706
Effective search space used: 747416706
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.1 bits)