RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6187
(667 letters)
>gnl|CDD|217473 pfam03281, Mab-21, Mab-21 protein. This family contains Mab-21 and
Mab-21 like proteins. In C. elegans these proteins are
required for several aspects of embryonic development.
Length = 288
Score = 242 bits (619), Expect = 5e-75
Identities = 103/246 (41%), Positives = 148/246 (60%), Gaps = 19/246 (7%)
Query: 247 GRFEGLDVITPTEFEVVLYLNQMGELN--FVDDGSLPGCAVLKLSDGRKRSMSLWVEFIT 304
+EGL V++P EF+V++ LN G D G PG A+LKLS R SL E++T
Sbjct: 1 SYYEGLKVLSPNEFDVMIPLNGEGVFKKVLEDRGRPPGYALLKLSS---RDPSLLDEWLT 57
Query: 305 -ASGYLSARKIRSRFQTLVAQACDKCDYR--ESVKMIADTTEVKLRILGK---YVVQITP 358
A GYLS +K+ SRF LV++A +K Y + + V L + Y V + P
Sbjct: 58 CADGYLSPKKVLSRFLKLVSRAVNKLSYSDVIVESLEPNGPAVTLAVEEDGLQYSVDLVP 117
Query: 359 AFKCAGVWPRSASQWPQPDIAWPHPSIVAEIKAEGFDLLSKETFNITGKQSALEGDAWVM 418
AF+C G WP SA +WP+ WP P ++ EIK+EGF L+ K + K+++ +GD W +
Sbjct: 118 AFECPGGWPESAQEWPRRSRRWPSPELIEEIKSEGFHLVPKPS-----KKNSKDGDEWRL 172
Query: 419 SFLEVEKRLL--LGGCRRKCLSVLKTLRNRHLDLPGNPITNYCMKSLLLYECEKHPSEND 476
SF + EK LL +GGCRRKCL +LK LR L P + I++Y +K+LLL+ECEKHP ++D
Sbjct: 173 SFSQAEKALLANIGGCRRKCLRILKYLREVEL-GPPSVISSYHLKTLLLWECEKHPEDSD 231
Query: 477 WEDHCV 482
W++ +
Sbjct: 232 WDESNL 237
Score = 219 bits (561), Expect = 1e-66
Identities = 83/196 (42%), Positives = 127/196 (64%), Gaps = 11/196 (5%)
Query: 1 MIADTTEVKLRILGK---YVVQITPAFKCAGVWPRSASQWPQPDIAWPHPSIVAEIKAEG 57
+ + V L + Y V + PAF+C G WP SA +WP+ WP P ++ EIK+EG
Sbjct: 93 LEPNGPAVTLAVEEDGLQYSVDLVPAFECPGGWPESAQEWPRRSRRWPSPELIEEIKSEG 152
Query: 58 FDLLSKETFNITGKQSALEGDAWVMSFLEVEKRLL--LGGCRRKCLSVLKTLRNRHLDLP 115
F L+ K + K+++ +GD W +SF + EK LL +GGCRRKCL +LK LR L P
Sbjct: 153 FHLVPKPS-----KKNSKDGDEWRLSFSQAEKALLANIGGCRRKCLRILKYLREVEL-GP 206
Query: 116 GNPITNYCMKSLLLYECEKHPSENDWEDHCVGDRINGIFLQLISCLQCKRCPNYFVPQLD 175
+ I++Y +K+LLL+ECEKHP ++DW++ +GDR+ G+ +L+ CL+ +R P+YF+P+L+
Sbjct: 207 PSVISSYHLKTLLLWECEKHPEDSDWDESNLGDRLLGLLDELVKCLRKRRLPHYFIPELN 266
Query: 176 LFKGKTPSSLENAAKQ 191
L G P+ L+ AK+
Sbjct: 267 LLDGLDPNQLDELAKK 282
Score = 173 bits (441), Expect = 2e-49
Identities = 70/155 (45%), Positives = 93/155 (60%), Gaps = 23/155 (14%)
Query: 503 LVAQACDKLSKTRDAWVMSFTDVESKLL--IGGCRKKCLSILKTLRDRHLELPGNPKCLS 560
LV + K SK D W +SF+ E LL IGGCR+KCL ILK LR+ L P
Sbjct: 155 LVPKPSKKNSKDGDEWRLSFSQAEKALLANIGGCRRKCLRILKYLREVELGPP------- 207
Query: 561 ILKTLRDRHLELPGNPVTNYHMKTLLLYECEKHPNELEWDESCLGDRINGILLQLISCLQ 620
+ +++YH+KTLLL+ECEKHP + +WDES LGDR+ G+L +L+ CL+
Sbjct: 208 --------------SVISSYHLKTLLLWECEKHPEDSDWDESNLGDRLLGLLDELVKCLR 253
Query: 621 CRRCPHYFLPHLDLFKGKSPSALENAAKQVWRLTR 655
RR PHYF+P L+L G P+ L+ AK+V L R
Sbjct: 254 KRRLPHYFIPELNLLDGLDPNQLDELAKKVADLRR 288
Score = 42.0 bits (99), Expect = 6e-04
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
Query: 472 PSENDWEDHCVEFIT-ASGYLSARKMRSRFQTLVAQACDKLSK 513
+ E++T A GYLS +K+ SRF LV++A +KLS
Sbjct: 47 RDPSLL----DEWLTCADGYLSPKKVLSRFLKLVSRAVNKLSY 85
>gnl|CDD|193250 pfam12774, AAA_6, Hydrolytic ATP binding site of dynein motor
region D1. 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 particular family is the D1 unit of the
motor and contains the hydrolytic ATP binding site.
Length = 231
Score = 30.7 bits (69), Expect = 1.8
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 476 DWEDHCVEFITASGYLSARKMRSRFQTLVAQACDKLSKTRDAWVMSFTDVESKLLIGGCR 535
D+E C + A G+L AR + +F TL C +L +D + ++S L++ G
Sbjct: 168 DFELICEIMLVAEGFLEARLLARKFITLY-TLCKELLSKQDHYDWGLRAIKSVLVVAGSL 226
Query: 536 KK 537
K+
Sbjct: 227 KR 228
>gnl|CDD|224249 COG1330, RecC, Exonuclease V gamma subunit [DNA replication,
recombination, and repair].
Length = 1078
Score = 31.6 bits (72), Expect = 1.8
Identities = 12/39 (30%), Positives = 18/39 (46%)
Query: 580 YHMKTLLLYECEKHPNELEWDESCLGDRINGILLQLISC 618
+ +LY E+ +E D + G R+ G LLQL
Sbjct: 887 KPLANAVLYSIEQPGQSVEIDLTIHGVRLKGWLLQLYGD 925
>gnl|CDD|181646 PRK09098, PRK09098, type III secretion system protein HrpB;
Validated.
Length = 233
Score = 30.5 bits (69), Expect = 2.1
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 492 SARKMRSRFQTLVAQACDKLSKTRDA 517
+AR+MR R +VA A +++ D
Sbjct: 107 AARRMRERLAEIVAAAVEQIVLGEDR 132
Score = 30.2 bits (68), Expect = 3.4
Identities = 9/42 (21%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 290 DGRKRSMSLWVEFITASGYL---SARKIRSRFQTLVAQACDK 328
G +++++ W + +AR++R R +VA A ++
Sbjct: 84 AGLRQALAEWHARGADHAFAERRAARRMRERLAEIVAAAVEQ 125
>gnl|CDD|233261 TIGR01073, pcrA, ATP-dependent DNA helicase PcrA. Designed to
identify pcrA members of the uvrD/rep subfamily [DNA
metabolism, DNA replication, recombination, and repair].
Length = 726
Score = 30.1 bits (68), Expect = 4.4
Identities = 9/39 (23%), Positives = 19/39 (48%), Gaps = 6/39 (15%)
Query: 492 SARKMRSRFQTLVAQACDKLSKTRDAWVMSFTDVESKLL 530
+AR+M+ R + L+ D W+ +F + ++L
Sbjct: 61 AAREMKERVEKLLGPVA------EDIWISTFHSMCVRIL 93
>gnl|CDD|239126 cd02661, Peptidase_C19E, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 304
Score = 29.2 bits (66), Expect = 7.1
Identities = 22/58 (37%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 152 GIFLQLISCLQCKRCPNYFVPQLDLF-KGKTPSSLENAAKQ---SKILYQLNKYYGER 205
G + CL CK N + P LDL K SLE+A +Q + L NKY ER
Sbjct: 130 GYLRSQVKCLNCKHVSNTYDPFLDLSLDIKGADSLEDALEQFTKPEQLDGENKYKCER 187
>gnl|CDD|179337 PRK01810, PRK01810, DNA polymerase IV; Validated.
Length = 407
Score = 29.2 bits (66), Expect = 7.2
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 9/50 (18%)
Query: 169 YFVPQLDLFKGKTPSSLENAAKQSKILY---QLNKYYGERVQTRKASIAK 215
V QLDLF S E AK+ +L Q+N YG + R + + +
Sbjct: 349 EAVKQLDLF------SFEEDAKEEPLLAVIDQINDKYGMPLLQRGSQLLR 392
>gnl|CDD|215552 PLN03051, PLN03051, acyl-activating enzyme; Provisional.
Length = 499
Score = 29.4 bits (66), Expect = 7.4
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 47 PSIVAEIK------AEGFDLLSKETFNITGKQSALEGDAWVMS 83
PSIV + EG D F TG+ SA++ W+ S
Sbjct: 216 PSIVKAWRHTGAFAMEGLDWSKLRVFASTGEASAVDDVLWLSS 258
Score = 29.4 bits (66), Expect = 7.4
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 383 PSIVAEIK------AEGFDLLSKETFNITGKQSALEGDAWVMS 419
PSIV + EG D F TG+ SA++ W+ S
Sbjct: 216 PSIVKAWRHTGAFAMEGLDWSKLRVFASTGEASAVDDVLWLSS 258
>gnl|CDD|216384 pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase. 6-Pyruvoyl
tetrahydrobiopterin synthase catalyzes the conversion of
dihydroneopterin triphosphate to 6-pyruvoyl
tetrahydropterin, the second of three enzymatic steps in
the synthesis of tetrahydrobiopterin from GTP. The
functional enzyme is a hexamer of identical subunits.
Length = 121
Score = 27.9 bits (63), Expect = 7.6
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 626 HYFLPHLDLFKGKSPSALENAAKQVWRLTRELLTNSRA 663
H L + F G +P+A EN A+ +W + L
Sbjct: 65 HKLLNDVPEFAGVNPTA-ENIARYIWDRLKPRLQGGGV 101
>gnl|CDD|200564 cd10939, CE4_ArnD, Catalytic domain of Escherichia coli
4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol
deformylase ArnD and other bacterial homologs. This
family is represented by Escherichia coli
4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol
deformylase ArnD (EC 3.5.1.n3). ArnD plays an important
role in the biosynthesis of undecaprenyl phosphate
alpha-4-amino-4-deoxy-L-arabinose (alpha-L-Ara4N). It
catalyzes the deformylation of
4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol to
4-amino-4-deoxy-L-arabinose-phosphoundecaprenol. The
ArnD-dependent deformylation likely occurs on the inner
leaflet of the inner membrane. This family also includes
many uncharacterized bacterial polysaccharide
deacetylases. All family members show high sequence
homology to the catalytic domain of bacterial PuuE
(purine utilization E) allantoinases and Helicobacter
pylori peptidoglycan deacetylase (HpPgdA), and are
classified within the larger carbohydrate esterase 4
(CE4) superfamily.
Length = 290
Score = 29.2 bits (66), Expect = 7.8
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 37 WPQPDIAWPHPSIVAEIKAEGFD 59
P P I I+ ++ G +
Sbjct: 79 LPGPIIGRRLADIIRQVAKAGHE 101
Score = 29.2 bits (66), Expect = 7.8
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 373 WPQPDIAWPHPSIVAEIKAEGFD 395
P P I I+ ++ G +
Sbjct: 79 LPGPIIGRRLADIIRQVAKAGHE 101
>gnl|CDD|222956 PHA02992, PHA02992, hypothetical protein; Provisional.
Length = 728
Score = 29.3 bits (66), Expect = 9.0
Identities = 28/169 (16%), Positives = 56/169 (33%), Gaps = 27/169 (15%)
Query: 453 NPITNYCMKSLLLYECEKHPSENDWEDHCVEFITASGYLSARKMRSRFQ---TLVAQAC- 508
NPIT+Y + N + F+ G+ SA+ + F+ T A
Sbjct: 392 NPITDYTFTTNWY---------NKNNELIDLFVKKYGFCSAKMNKLMFEYPLTKEASDHL 442
Query: 509 -DKLSKTRDAWVMSFTDVESKLLIGGCRKKCLSILKTLRDRHLELPGNPKCLSILKTLRD 567
+ + + + A + + S + K + ++PG + + K R
Sbjct: 443 LNIMDENKGASMFYPKTICSLFYLLCTNYKL---------KVKKIPGENRNIPYKKDNRK 493
Query: 568 RHLELPGNPVTNYHMKTLLLYECEKHPNELEWDESCLGDRINGILLQLI 616
+ + N +K+L+L + + NGI +Q
Sbjct: 494 NCFDS----LDNSAIKSLILISNIPGLDTYNMKDITYEKTRNGICIQFN 538
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
0.322 0.137 0.428
Gapped
Lambda K H
0.267 0.0558 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,144,655
Number of extensions: 3177165
Number of successful extensions: 2455
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2439
Number of HSP's successfully gapped: 18
Length of query: 667
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 564
Effective length of database: 6,369,140
Effective search space: 3592194960
Effective search space used: 3592194960
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 (21.9 bits)
S2: 62 (28.0 bits)