RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8069
(466 letters)
>gnl|CDD|216609 pfam01619, Pro_dh, Proline dehydrogenase.
Length = 341
Score = 172 bits (439), Expect = 8e-50
Identities = 62/226 (27%), Positives = 96/226 (42%), Gaps = 26/226 (11%)
Query: 8 TGITAIKLTALGRPQLLLQLSEVIMRARKFTSEIMGGRGNVIGQNLTQETLEQRLQQAGI 67
G + LTALGRP L L +SE + Q +T ET++Q ++
Sbjct: 2 LGFVFLFLTALGRPLLKLAVSEAMRLMG--------------DQFVTGETIQQAIKTIKR 47
Query: 68 TDTKKFLEKV----------TKDAQGVIHLFPWSGLLDVDSNLSDTFRVPCLKEKRMVRL 117
+++ F+ V A V + S L F VP + K + L
Sbjct: 48 LESQGFILSVDMLGEAALTAADAAAYVEAYLQAIHAIGKASLLWKIFSVPGISTK-LSEL 106
Query: 118 LSQLSKKEEEM-FRNMVRRLNTLVRTAKELDVRIMIDAEQTYFQPAISRLTMELMQKYNS 176
+ + S EEE ++ RL L A+E+ V + IDAE+TY I + E+ N
Sbjct: 107 ILKYSSAEEERVMEELLPRLRDLAEKAQEMGVALTIDAEETYRLELILDIFKEMFNPENK 166
Query: 177 EKAIVFNTYQCYLRDTLNEVITDLNQAKRQKFYFGAKLVRGAYIEQ 222
+ V N Q YLR ++ + A+R+ FG +LV+GAY +
Sbjct: 167 GRPGVGNVIQAYLRRAGEDIDYLVALARREGRKFGVRLVKGAYWDS 212
Score = 89.4 bits (222), Expect = 1e-19
Identities = 38/112 (33%), Positives = 52/112 (46%), Gaps = 12/112 (10%)
Query: 331 RYKVSSARTYFYLNEATCERNVEIFQDCLHAVADIGISPEDKVICFGQLLGMCDYITFPL 390
+ R Y Y A+ N + L ++GI P F QL GM D ++F L
Sbjct: 242 LRLLLEGRNYIYPMVAS--HNADTIAFVLQLAKELGIPPGQ--FEFQQLYGMGDQLSFEL 297
Query: 391 GQAGYSAYKYIPYGPVNRKSIGKIIEVLPYLSRRATENKGVLEKISKEKKLL 442
G+AGY+ KY PYGPV E+L YL RR EN +++E+ L
Sbjct: 298 GKAGYNVRKYAPYGPVE--------ELLAYLVRRLLENGANSSFVNRERDLK 341
>gnl|CDD|215366 PLN02681, PLN02681, proline dehydrogenase.
Length = 455
Score = 130 bits (330), Expect = 2e-33
Identities = 41/103 (39%), Positives = 62/103 (60%), Gaps = 2/103 (1%)
Query: 121 LSKKEEEMFRNMVRRLNTLVRTAKELDVRIMIDAEQTYFQPAISRLTMELMQKYN--SEK 178
L+ +EE + RL L A +L V ++IDAE T QPAI +T +L +++N ++
Sbjct: 207 LTAEEERLLELAHERLQKLCERAAQLGVPLLIDAEYTSLQPAIDYITYDLAREFNKGKDR 266
Query: 179 AIVFNTYQCYLRDTLNEVITDLNQAKRQKFYFGAKLVRGAYIE 221
IV+ TYQ YL+D + DL +++R+ GAKLVRGAY+
Sbjct: 267 PIVYGTYQAYLKDARERLRLDLERSEREGVPLGAKLVRGAYLS 309
Score = 112 bits (282), Expect = 5e-27
Identities = 43/102 (42%), Positives = 63/102 (61%), Gaps = 8/102 (7%)
Query: 350 RNVEIFQDCLHAVADIGISPEDKVICFGQLLGMCDYITFPLGQAGYSAYKYIPYGPVNRK 409
NVE + + ++G+ D + F QLLGM D ++F LG AG+ KY+PYGPV
Sbjct: 358 HNVESGELAAAKMNELGLHKGDPRVQFAQLLGMSDNLSFGLGNAGFRVSKYLPYGPVE-- 415
Query: 410 SIGKIIEVLPYLSRRATENKGVLEKISKEKKLLRQEILRRIK 451
EV+PYL RRA EN+G+L + +++LLR+E+ RR+K
Sbjct: 416 ------EVIPYLLRRAEENRGLLSGSAIDRQLLRKELKRRLK 451
>gnl|CDD|237017 PRK11904, PRK11904, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1038
Score = 40.6 bits (96), Expect = 0.002
Identities = 28/113 (24%), Positives = 46/113 (40%), Gaps = 33/113 (29%)
Query: 124 KEEEMFRNMVRRLNTLVRTAKELDVRIMIDAEQTYFQPAISRL--TMELMQK-YNSEKA- 179
+ E + +V R+ L R AKE ++ + IDAE+ RL +++L + +
Sbjct: 262 QRERVLAELVPRVLELARLAKEANIGLTIDAEEA------DRLELSLDLFEALFRDPSLK 315
Query: 180 ------IVFNTYQ-------CYLRDTLNEVITDLNQAKRQKFYFGAKLVRGAY 219
+ YQ +L DL A+RQ +LV+GAY
Sbjct: 316 GWGGFGLAVQAYQKRALPVLDWL--------ADL--ARRQGRRIPVRLVKGAY 358
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 674
Score = 34.6 bits (80), Expect = 0.11
Identities = 12/48 (25%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 330 RRYKVSSARTYFYLNEATCER-----NVEIFQDCLHAVADIGISPEDK 372
++YK+ + + YLN++ C + E + A+ +GIS E++
Sbjct: 208 KKYKLGDPKEFHYLNQSNCFELDGVDDAEEYLATRRAMDVVGISEEEQ 255
>gnl|CDD|214580 smart00242, MYSc, Myosin. Large ATPases. ATPase; molecular motor.
Muscle contraction consists of a cyclical interaction
between myosin and actin. The core of the myosin
structure is similar in fold to that of kinesin.
Length = 677
Score = 34.4 bits (80), Expect = 0.13
Identities = 46/195 (23%), Positives = 78/195 (40%), Gaps = 53/195 (27%)
Query: 216 RGAY--IEQVSQNQSVKTSGSVKTLNYIVETSGSVKT------LNYIVETSGSVKTLNYI 267
AY + +NQS+ SG E SG+ KT + Y+ SGS + +
Sbjct: 80 DNAYRNMLNDKENQSIIISG---------E-SGAGKTENTKKIMQYLASVSGSNTEVGSV 129
Query: 268 VETSGSVKTLNYIVETSGSVKTL----------------NYIVETSGSMKTLNYIVETS- 310
+ + N I+E G+ KTL + + G+ K Y++E S
Sbjct: 130 ED---QILESNPILEAFGNAKTLRNNNSSRFGKFIEIHFDAKGKIIGA-KIETYLLEKSR 185
Query: 311 -AEKIGGELPQYHV-----AKSFADRR--YKVSSARTYFYLNEATCER-----NVEIFQD 357
+ GE YH+ A + + + + S Y YLN+ C + E F++
Sbjct: 186 VVSQAKGE-RNYHIFYQLLAGASEELKKELGLKSPEDYRYLNQGGCLTVDGIDDAEEFKE 244
Query: 358 CLHAVADIGISPEDK 372
L+A+ +G S E++
Sbjct: 245 TLNAMRVLGFSEEEQ 259
>gnl|CDD|238674 cd01378, MYSc_type_I, Myosin motor domain, type I myosins. Myosin I
generates movement at the leading edge in cell motility,
and class I myosins have been implicated in phagocytosis
and vesicle transport. Myosin I, an unconventional
myosin, does not form dimers. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Myosins are actin-dependent
molecular motors that play important roles in muscle
contraction, cell motility, and organelle transport. The
head domain is a molecular motor, which utilizes ATP
hydrolysis to generate directed movement toward the plus
end along actin filaments. A cyclical interaction
between myosin and actin provides the driving force.
Rates of ATP hydrolysis and consequently the speed of
movement along actin filaments vary widely, from about
0.04 micrometer per second for myosin I to 4.5
micrometer per second for myosin II in skeletal muscle.
Myosin II moves in discrete steps about 5-10 nm long and
generates 1-5 piconewtons of force. Upon ATP binding,
the myosin head dissociates from an actin filament. ATP
hydrolysis causes the head to pivot and associate with a
new actin subunit. The release of Pi causes the head to
pivot and move the filament (power stroke). Release of
ADP completes the cycle.
Length = 674
Score = 33.7 bits (78), Expect = 0.23
Identities = 40/184 (21%), Positives = 72/184 (39%), Gaps = 51/184 (27%)
Query: 224 SQNQSVKTSGSVKTLNYIVETSGSVKT------LNYIVETSGSVKTLNYIVETSGSVKTL 277
++NQ V SG SG+ KT + YI SG + + + + +
Sbjct: 84 NENQCVIISGE----------SGAGKTEAAKKIMQYIAAVSGGGQKVERVKDV---ILQS 130
Query: 278 NYIVETSGSVKTL----------------NYIVETSGSMKTLNYIVETS--AEKIGGELP 319
N ++E G+ KTL ++ + G K NY++E S + GE
Sbjct: 131 NPLLEAFGNAKTLRNNNSSRFGKYMEIQFDFKGDPVGG-KITNYLLEKSRVVSQNKGE-R 188
Query: 320 QYHVAKSF---AD----RRYKVSSARTYFYLNEATCER-----NVEIFQDCLHAVADIGI 367
+H+ A R + Y+YLN++ C + + F++ +A+ IG
Sbjct: 189 NFHIFYQLLAGASEQLLRELGLQKPEYYYYLNQSQCYTVDGIDDKKDFKETQNAMKVIGF 248
Query: 368 SPED 371
S ++
Sbjct: 249 SEDE 252
>gnl|CDD|132900 cd06845, Bcl-2_like, Apoptosis regulator proteins of the Bcl-2
family, named after B-cell lymphoma 2. This alignment
model spans what have been described as Bcl-2 homology
regions BH1, BH2, BH3, and BH4. Many members of this
family have an additional C-terminal transmembrane
segment. Some homologous proteins, which are not
included in this model, may miss either the BH4 (Bax,
Bak) or the BH2 (Bcl-X(S)) region, and some appear to
only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1).
This family is involved in the regulation of the outer
mitochondrial membrane's permeability and in promoting
or preventing the release of apoptogenic factors, which
in turn may trigger apoptosis by activating caspases.
Bcl-2 and the closely related Bcl-X(L) are
anti-apoptotic key regulators of programmed cell death.
They are assumed to function via heterodimeric
protein-protein interactions, binding pro-apoptotic
proteins such as Bad (BCL2-antagonist of cell death),
Bid, and Bim, by specifically interacting with their BH3
regions. Interfering with this heterodimeric interaction
via small-molecule inhibitors may prove effective in
targeting various cancers. This family also includes the
Caenorhabditis elegans Bcl-2 homolog CED-9, which binds
to CED-4, the C. Elegans homolog of mammalian Apaf-1.
Apaf-1, however, does not seem to be inhibited by Bcl-2
directly.
Length = 144
Score = 31.5 bits (72), Expect = 0.37
Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 7/60 (11%)
Query: 92 GLLDVDSNLSDTFRVPCLKEKRMVRLLSQLSKKEEEMFRNMVRRLNTLVRTAKELDVRIM 151
L S S+ + R+ +L +K +F NM R+LN A E+ +
Sbjct: 24 SPLPSGSPPSEVAET-------LRRVGDELEEKHRRLFENMCRQLNISPDNAYEVFQEVA 76
>gnl|CDD|216395 pfam01261, AP_endonuc_2, Xylose isomerase-like TIM barrel. This
TIM alpha/beta barrel structure is found in xylose
isomerase and in endonuclease IV (EC:3.1.21.2). This
domain is also found in the N termini of bacterial
myo-inositol catabolism proteins. These are involved in
the myo-inositol catabolism pathway, and is required for
growth on myo-inositol in Rhizobium leguminosarum bv.
viciae.
Length = 202
Score = 32.0 bits (73), Expect = 0.49
Identities = 25/169 (14%), Positives = 47/169 (27%), Gaps = 36/169 (21%)
Query: 40 EIMGGRGNVIGQNLTQETLEQRLQQAGITDTKKFLEKVTKDAQGVIHLFPWSGLLDVDSN 99
E+ E L+ L++ G+ I S
Sbjct: 13 ELFFDYPRPASDKEEIEELKALLKEYGLE----------------ISSLNPSLG---LLE 53
Query: 100 LSDTFRVPCLKE-KRMVRLLSQL--------------SKKEEEMFRNMVRRLNTLVRTAK 144
+ R L+ KR + L + L K EE + LN L A+
Sbjct: 54 PDEHERAAALEALKRAIELAAALGAKVVVVHPGSAPAGKDREEALDRLAESLNELAELAE 113
Query: 145 ELDVRIMIDAEQTYFQPAIS-RLTMELMQKYNSEKA-IVFNTYQCYLRD 191
E V++ ++ + L+ + +S + +T +
Sbjct: 114 EYGVKLALENHPGTGVELGYFEEALRLIDEVDSPNVGLCLDTGHAFAAG 162
>gnl|CDD|220636 pfam10222, DUF2152, Uncharacterized conserved protein (DUF2152).
This is a family of proteins conserved from worms to
humans. Its function is unknown.
Length = 603
Score = 31.8 bits (72), Expect = 0.81
Identities = 14/74 (18%), Positives = 22/74 (29%)
Query: 267 IVETSGSVKTLNYIVETSGSVKTLNYIVETSGSMKTLNYIVETSAEKIGGELPQYHVAKS 326
I + V L + + +E G + L A G++ V
Sbjct: 179 ISNPTNRVVDLELVSPRISDARRFTSSLELVGKLGELLVHTGRVAPVSDGKIIVVVVVAK 238
Query: 327 FADRRYKVSSARTY 340
R +VS RT
Sbjct: 239 KLPGRLQVSPRRTE 252
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 31.2 bits (71), Expect = 1.4
Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 11/101 (10%)
Query: 37 FTSEIMGGRGNVIGQNLTQ---ETLEQRLQQAGITDTKKFLEKVTKDAQGVIHLFPWSGL 93
F +E+M RG + + E + GIT +E + DA+ +
Sbjct: 267 FMAELMQNRGQITAVDRYPQKLEKIRSHASALGIT----IIETIEGDARSFSPEEQPDAI 322
Query: 94 LDVDSNLSDT---FRVPCLKEKRMVRLLSQLSKKEEEMFRN 131
L +D+ + T R L+ K L++L + E+ +
Sbjct: 323 L-LDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDH 362
>gnl|CDD|217987 pfam04250, DUF429, Protein of unknown function (DUF429).
Length = 202
Score = 29.7 bits (67), Expect = 2.7
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 412 GKIIEVLPYLSRRATENKGVLEKISKEKKLLRQEILRRI 450
++IE P S +A V K +KE + R+ +L R+
Sbjct: 112 LEVIETHPEASFKALGGSPVASKKTKEGRAERRALLARL 150
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR
family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish CNS
myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 29.1 bits (65), Expect = 4.6
Identities = 14/60 (23%), Positives = 25/60 (41%)
Query: 254 IVETSGSVKTLNYIVETSGSVKTLNYIVETSGSVKTLNYIVETSGSMKTLNYIVETSAEK 313
I SG+ +IV+ S + ++ E K L+ ++ +G M + E EK
Sbjct: 45 IETESGNQNIFLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAGCMVNKRELTEDGLEK 104
>gnl|CDD|238071 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 679
Score = 29.2 bits (66), Expect = 5.3
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 332 YKVSSARTYFYLNEATC-----ERNVEIFQDCLHAVADIGISPEDKVICF 376
+ +Y YLN+ C + E F++ A+ +G S E+ F
Sbjct: 206 LGLKRPESYRYLNQGGCNDVDGIDDAEEFEELKEALKSLGFSEEEIESIF 255
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 28.4 bits (64), Expect = 9.9
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 332 YKVSSARTYFYLNEATC-----ERNVEIFQDCLHAVADIGISPEDK 372
+ + Y YL+++ C + E F+D A+ IG + E++
Sbjct: 208 LGLKDPKDYAYLSQSGCYTVPGIDDAEEFKDTRSALKIIGFTDEEQ 253
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 0.134 0.373
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,059,766
Number of extensions: 2243856
Number of successful extensions: 2373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2363
Number of HSP's successfully gapped: 36
Length of query: 466
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 366
Effective length of database: 6,502,202
Effective search space: 2379805932
Effective search space used: 2379805932
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: 61 (27.1 bits)