RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5919
(387 letters)
>gnl|CDD|240301 PTZ00166, PTZ00166, DNA polymerase delta catalytic subunit;
Provisional.
Length = 1054
Score = 101 bits (253), Expect = 3e-23
Identities = 57/189 (30%), Positives = 85/189 (44%), Gaps = 15/189 (7%)
Query: 87 VPVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKD 146
VP+IR++G EG V VH FPY YI Q+L ++ L+ +K
Sbjct: 74 VPIIRLYGVTKEGHSVLVNVHNFFPYFYIEAPPN-FLPEDSQKLKRELNAQLSEQSQFKK 132
Query: 147 SVQHVFHISICKKFPMYGYHAD-ERTFLKILLYEPYHMSKLEDLLLNGAVFNER------ 199
V I I KK + Y + E+ FLKI + P + +L L+ +G V
Sbjct: 133 YQNTVLDIEIVKKESLMYYKGNGEKDFLKITVQLPKMVPRLRSLIESGVVVCGGGWDGIR 192
Query: 200 -FQPYESHIPYILQFCIDYNLYGMSNIEF--NMVKFRSDSETSLPKLSHCQLEADVKAES 256
FQ YES++P++L+F ID N+ G S + K R + K S CQ+E D E
Sbjct: 193 LFQTYESNVPFVLRFLIDNNITGGSWLTLPKGKYKIRPPKK----KTSTCQIEVDCSYED 248
Query: 257 IVVDMAAND 265
++ +
Sbjct: 249 LIPLPPEGE 257
Score = 41.6 bits (98), Expect = 7e-04
Identities = 15/30 (50%), Positives = 18/30 (60%)
Query: 35 VPVIRVFGNNIEGKKTCVFVHGVFPYLYIP 64
VP+IR++G EG V VH FPY YI
Sbjct: 74 VPIIRLYGVTKEGHSVLVNVHNFFPYFYIE 103
>gnl|CDD|222444 pfam13901, DUF4206, Domain of unknown function (DUF4206). This is
a family of cysteine-rich proteins. Many members also
carry a pleckstrin-homology domain, pfam00169.
Length = 202
Score = 55.7 bits (135), Expect = 4e-09
Identities = 24/65 (36%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 321 LKDLVSACSIFRMRAIL-LGQEP-HLLMDPDVYSMQDLLDVKSGALYLKLKDLVSACSSH 378
+KD + C F + +L L Q +LL D +YS+ DL+DV +G+L L++L+ H
Sbjct: 83 MKDYLVTCR-FAVSELLQLRQIREYLLEDIHLYSLADLIDVSNGSLLPLLEELIKKAEEH 141
Query: 379 VYNCE 383
V +CE
Sbjct: 142 VTSCE 146
Score = 39.9 bits (94), Expect = 7e-04
Identities = 15/46 (32%), Positives = 24/46 (52%)
Query: 284 NSMRAILLGQEPHLLMDPDVYSMQDLLDVKSGALYLKLKDLVSACS 329
S L +LL D +YS+ DL+DV +G+L L++L+
Sbjct: 94 VSELLQLRQIREYLLEDIHLYSLADLIDVSNGSLLPLLEELIKKAE 139
>gnl|CDD|223494 COG0417, PolB, DNA polymerase elongation subunit (family B) [DNA
replication, recombination, and repair].
Length = 792
Score = 42.8 bits (101), Expect = 2e-04
Identities = 27/160 (16%), Positives = 52/160 (32%), Gaps = 17/160 (10%)
Query: 82 LVIQKVPVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIA 141
+ I P++R+FG+ GK V PY Y+ + +
Sbjct: 3 IEIDGFPLVRIFGDTDSGKSVVKLVATFRPYFYV----TLDNSRPEDYVLKIL------- 51
Query: 142 LGYKDSVQHVFHISICKKFPMYGYHADERTFLKILLYEPYHMSKLEDLLLNGAVFNERFQ 201
+ + + Y E LKI +P + KL + +
Sbjct: 52 --NRRLDDVLELEEVENVPDPYLG--REVEVLKIYARDPQAVRKLREKVKRELEGV--VD 105
Query: 202 PYESHIPYILQFCIDYNLYGMSNIEFNMVKFRSDSETSLP 241
+E+ IP+ +++ ID + M + ++ S L
Sbjct: 106 IFEADIPFAMRYLIDKGIRPMVWVSVDVEDIGSIHSLFLE 145
Score = 29.7 bits (67), Expect = 3.4
Identities = 22/118 (18%), Positives = 34/118 (28%), Gaps = 14/118 (11%)
Query: 30 LVIQKVPVIRVFGNNIEGKKTCVFVHGVFPYLYIPFHHEPITETIVHSELRNLVIQKVPV 89
+ I P++R+FG+ GK V PY Y+ L+ L + V
Sbjct: 3 IEIDGFPLVRIFGDTDSGKSVVKLVATFRPYFYV----TLDNSRPEDYVLKILNRRLDDV 58
Query: 90 IRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASIDKALNIALGYKDS 147
+ + PYL I Q + +K G D
Sbjct: 59 LEL---EEVENVP-------DPYLGREVEVLKIYARDPQAVRKLREKVKRELEGVVDI 106
>gnl|CDD|238440 cd00864, PI3Ka, Phosphoinositide 3-kinase family, accessory domain
(PIK domain); PIK domain is conserved in PI3 and
PI4-kinases. Its role is unclear, but it has been
suggested to be involved in substrate presentation.
Phosphoinositide 3-kinases play an important role in a
variety of fundamental cellular processes and can be
divided into three main classes, defined by their
substrate specificity and domain architecture.
Length = 152
Score = 31.8 bits (73), Expect = 0.31
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 178 YEPYHMSKLEDLLLNGAVFNERF 200
YEPY S L LL A+ ++R
Sbjct: 116 YEPYLDSYLARFLLERALKSQRL 138
>gnl|CDD|222357 pfam13742, tRNA_anti_2, OB-fold nucleic acid binding domain. This
family contains OB-fold domains that bind to nucleic
acids.
Length = 97
Score = 29.0 bits (66), Expect = 1.1
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 313 KSGALYLKLKDLVS--ACSIFRMRAILLGQEPH 343
+SG LY +LKD + I+R RA LG +P
Sbjct: 36 RSGHLYFELKDKDASIRAVIWRSRARRLGFDPE 68
>gnl|CDD|214537 smart00145, PI3Ka, Phosphoinositide 3-kinase family, accessory
domain (PIK domain). PIK domain is conserved in all PI3
and PI4-kinases. Its role is unclear but it has been
suggested to be involved in substrate presentation.
Length = 184
Score = 29.9 bits (68), Expect = 1.4
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 176 LLYEPYHMSKLEDLLLNGAVFNERF 200
L YEPY S L LL A+ N+R
Sbjct: 119 LKYEPYLDSALARFLLERALANQRL 143
>gnl|CDD|239935 cd04489, ExoVII_LU_OBF, ExoVII_LU_OBF: A subfamily of OB folds
corresponding to the N-terminal OB-fold domain of
Escherichia coli exodeoxyribonuclease VII (ExoVII) large
subunit. E. coli ExoVII is composed of two non-identical
subunits. E. coli ExoVII is a single-strand-specific
exonuclease which degrades ssDNA from both 3-prime and
5-prime ends. ExoVII plays a role in methyl-directed
mismatch repair in vivo. ExoVII may also guard the
genome from mutagenesis by removing excess ssDNA, since
the build up of ssDNA would lead to SOS induction and
PolIV-dependent mutagenesis.
Length = 78
Score = 28.3 bits (64), Expect = 1.8
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 313 KSGALYLKLKDLVSACS--IFRMRAILLGQEP 342
SG LY LKD ++ ++R A LG
Sbjct: 15 SSGHLYFTLKDEDASIRCVMWRSNARRLGFPL 46
>gnl|CDD|214440 MTH00156, CYTB, cytochrome b; Provisional.
Length = 356
Score = 30.1 bits (69), Expect = 2.0
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 318 YLKLKDLVSACSIFRMRAILLGQEPHLLMDPDVYSM 353
Y KDLV + + +L P+LL DP+ +
Sbjct: 213 YFTFKDLVGFIIMLMLLILLTLINPYLLGDPENFIP 248
>gnl|CDD|227019 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase
component [General function prediction only].
Length = 249
Score = 29.6 bits (67), Expect = 2.4
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 288 AILLGQEPHLLM-DPDVYSMQDLLDVKSGALYLKLKDLVSACSI 330
+LL Q+P LL+ D V M D K+ L LK L SI
Sbjct: 159 GMLLAQDPKLLLLDEPVAGMTDAETEKTAEL---LKSLAGKHSI 199
Score = 27.7 bits (62), Expect = 10.0
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 335 AILLGQEPHLLM-DPDVYSMQDLLDVKSGALYLKLKDLVSACS 376
+LL Q+P LL+ D V M D K+ L LK L S
Sbjct: 159 GMLLAQDPKLLLLDEPVAGMTDAETEKTAEL---LKSLAGKHS 198
>gnl|CDD|144268 pfam00613, PI3Ka, Phosphoinositide 3-kinase family, accessory
domain (PIK domain). PIK domain is conserved in all PI3
and PI4-kinases. Its role is unclear but it has been
suggested to be involved in substrate presentation.
Length = 185
Score = 28.8 bits (65), Expect = 3.8
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 176 LLYEPYHMSKLEDLLLNGAVFNERF 200
L YEP+H S L LL A+ N+R
Sbjct: 120 LKYEPFHDSYLSRFLLQRALKNQRL 144
>gnl|CDD|222706 pfam14356, DUF4403, Domain of unknown function (DUF4403). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 455 and 518 amino
acids in length. There is a single completely conserved
residue W that may be functionally important.
Length = 425
Score = 28.4 bits (64), Expect = 6.9
Identities = 13/101 (12%), Positives = 37/101 (36%), Gaps = 20/101 (19%)
Query: 75 VHSELRNLVIQKVPVIRVFGNNVEGKKTCVFVHGVFPYLYIPFHHEPITETMLQQLAASI 134
++ + + PV+ V G + + +PI + + +L A +
Sbjct: 114 TNTRITGYTWLEEPVVDVGGFRIN----------------VTSLVDPIIDKQVNKLTARL 157
Query: 135 DKALNIALGYKDSVQHVFHISICKKFPMYGYHADERTFLKI 175
D+ + L + +V+ V+ + + + +L++
Sbjct: 158 DREIRKQLSLRPTVEKVWA-RLQRPILLSK---PPPAWLRV 194
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
0.325 0.140 0.418
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,739,484
Number of extensions: 1922810
Number of successful extensions: 1839
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1833
Number of HSP's successfully gapped: 26
Length of query: 387
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 288
Effective length of database: 6,546,556
Effective search space: 1885408128
Effective search space used: 1885408128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.8 bits)