RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2029
(138 letters)
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 53.5 bits (129), Expect = 3e-09
Identities = 17/55 (30%), Positives = 31/55 (56%)
Query: 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58
++N ++S PT GKTL+ + I+ L ++I+P +L EKY+ ++ E
Sbjct: 47 DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEE 101
Score = 53.5 bits (129), Expect = 3e-09
Identities = 17/55 (30%), Positives = 31/55 (56%)
Query: 74 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128
++N ++S PT GKTL+ + I+ L ++I+P +L EKY+ ++ E
Sbjct: 47 DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEE 101
>gnl|CDD|234702 PRK00254, PRK00254, ski2-like helicase; Provisional.
Length = 720
Score = 48.7 bits (116), Expect = 2e-07
Identities = 24/64 (37%), Positives = 41/64 (64%), Gaps = 7/64 (10%)
Query: 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129
+++ KN VL+IPT+ GKTLV EI+++ +L + A++++P +L EKY+ E
Sbjct: 35 GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYR-------E 87
Query: 130 FKFY 133
FK +
Sbjct: 88 FKDW 91
Score = 47.5 bits (113), Expect = 3e-07
Identities = 24/63 (38%), Positives = 41/63 (65%), Gaps = 7/63 (11%)
Query: 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 60
+++ KN VL+IPT+ GKTLV EI+++ +L + A++++P +L EKY+ EF
Sbjct: 36 VLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYR-------EF 88
Query: 61 KFY 63
K +
Sbjct: 89 KDW 91
>gnl|CDD|100801 PRK01172, PRK01172, ski2-like helicase; Provisional.
Length = 674
Score = 47.6 bits (113), Expect = 3e-07
Identities = 20/53 (37%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55
+ +N ++S+PT+ GKTL+ I + KS I+I+P SL EKY+ L++
Sbjct: 36 KGENVIVSVPTAAGKTLIAYSAIYETFLAGLKS-IYIVPLRSLAMEKYEELSR 87
Score = 47.6 bits (113), Expect = 3e-07
Identities = 20/53 (37%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 73 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 125
+ +N ++S+PT+ GKTL+ I + KS I+I+P SL EKY+ L++
Sbjct: 36 KGENVIVSVPTAAGKTLIAYSAIYETFLAGLKS-IYIVPLRSLAMEKYEELSR 87
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 43.0 bits (102), Expect = 5e-06
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKEL--KIKQKSAIFILPYISLVHEKYQSLAK 125
++ K+ ++ PT GKTL + I++ L K A+ + P L + Y+ L K
Sbjct: 10 AILSGKDVLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQIYEELKK 67
Score = 42.2 bits (100), Expect = 1e-05
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 3 QNKNCVLSIPTSGGKTLVGEILIMKEL--KIKQKSAIFILPYISLVHEKYQSLAK 55
K+ ++ PT GKTL + I++ L K A+ + P L + Y+ L K
Sbjct: 13 SGKDVLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQIYEELKK 67
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 40.3 bits (95), Expect = 1e-04
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 10/66 (15%)
Query: 68 CLEM--IQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 125
+E + KN + +IPT+ GKTL+ E+ ++K + K A++I+P +L EK+
Sbjct: 31 AVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARGGK-ALYIVPLRALASEKF----- 84
Query: 126 AAEEFK 131
EEF+
Sbjct: 85 --EEFE 88
Score = 39.9 bits (94), Expect = 1e-04
Identities = 21/59 (35%), Positives = 35/59 (59%), Gaps = 8/59 (13%)
Query: 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 61
KN + +IPT+ GKTL+ E+ ++K + K A++I+P +L EK+ EEF+
Sbjct: 38 DGKNLLAAIPTASGKTLIAELAMLKAIARGGK-ALYIVPLRALASEKF-------EEFE 88
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 35.8 bits (83), Expect = 0.004
Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 57 AEEFKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 116
++ + K L KN ++ +PT GKT + ++I L+ +F+ P LV
Sbjct: 16 PRLYQLNIAAKALF----KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLV 71
Query: 117 HEKYQSLAKAA 127
+ + K
Sbjct: 72 LQHAEFCRKVT 82
Score = 35.0 bits (81), Expect = 0.007
Identities = 14/53 (26%), Positives = 25/53 (47%)
Query: 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57
KN ++ +PT GKT + ++I L+ +F+ P LV + + K
Sbjct: 30 KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVT 82
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 35.5 bits (82), Expect = 0.005
Identities = 18/61 (29%), Positives = 36/61 (59%), Gaps = 7/61 (11%)
Query: 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 60
+++ +N ++ T+ GKTL+GE+ + L K +F++P ++L ++KY E+F
Sbjct: 229 LLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKY-------EDF 281
Query: 61 K 61
K
Sbjct: 282 K 282
Score = 35.1 bits (81), Expect = 0.007
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 7/50 (14%)
Query: 82 PTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 131
T+ GKTL+GE+ + L K +F++P ++L ++KY E+FK
Sbjct: 240 ATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKY-------EDFK 282
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 34.8 bits (80), Expect = 0.006
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 4 NKNCVLSIPTSGGKTLVGEILIMKELK-IKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 62
++ +L+ PT GKTL + ++ LK K + ++P L + + L K
Sbjct: 24 LRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGL 83
Score = 34.8 bits (80), Expect = 0.006
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 74 NKNCVLSIPTSGGKTLVGEILIMKELK-IKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132
++ +L+ PT GKTL + ++ LK K + ++P L + + L K
Sbjct: 24 LRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGL 83
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 33.6 bits (77), Expect = 0.023
Identities = 26/103 (25%), Positives = 38/103 (36%), Gaps = 13/103 (12%)
Query: 33 QKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGE 92
+I HE Y+ KA E L + ++ VL PT GKT
Sbjct: 182 IARINKFKSFIE--HEGYELQEKALEL---ILRLEKRSLLV----VLEAPTGYGKTEASL 232
Query: 93 ILIMKELKIKQKSA---IFILPYISLVHEKYQSLAKAAEEFKF 132
IL + L K K I++LP+ +++ E AK
Sbjct: 233 ILALALLDEKIKLKSRVIYVLPFRTII-EDMYRRAKEIFGLFS 274
Score = 30.1 bits (68), Expect = 0.32
Identities = 26/101 (25%), Positives = 39/101 (38%), Gaps = 13/101 (12%)
Query: 8 VLSIPTSGGKTLVGEILIMKELKIKQKSA---IFILPYISLVHEKYQSLAKAAEEFKFYL 64
VL PT GKT IL + L K K I++LP+ +++ E AK +
Sbjct: 218 VLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTII-EDMYRRAKEIFGLFSVI 276
Query: 65 EGKC---------LEMIQNKNCVLSIPTSGGKTLVGEILIM 96
LE Q+ L+ S K L+ I++
Sbjct: 277 GKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVT 317
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 32.7 bits (75), Expect = 0.026
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYISLVHEKYQSLAKAAEEFKF 62
++ +L+ PT GKTL + I++ L + + + P L ++ + L + E
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIK 59
Score = 32.7 bits (75), Expect = 0.026
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYISLVHEKYQSLAKAAEEFKF 132
++ +L+ PT GKTL + I++ L + + + P L ++ + L + E
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIK 59
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 32.4 bits (74), Expect = 0.057
Identities = 24/130 (18%), Positives = 44/130 (33%), Gaps = 26/130 (20%)
Query: 11 IPTSGGKTLVGEILIM-KELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL 69
+ + G + L +L LK+ + PY Q +A +
Sbjct: 8 LSSKGAEELADYVLDEGLPLKLIVAFEFELRPY--------Q--EEALDALVKNRR---- 53
Query: 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV----HEKYQSLAK 125
+ V+ +PT GKT+V + ELK +S + ++P L+ + L
Sbjct: 54 ---TERRGVIVLPTGAGKTVVA-AEAIAELK---RSTLVLVPTKELLDQWAEALKKFLLL 106
Query: 126 AAEEFKFYLE 135
E +
Sbjct: 107 NDEIGIYGGG 116
Score = 31.6 bits (72), Expect = 0.094
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 8/62 (12%)
Query: 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV----HEKYQSLAKAAEEFKFY 63
V+ +PT GKT+V + ELK +S + ++P L+ + L E +
Sbjct: 59 VIVLPTGAGKTVVA-AEAIAELK---RSTLVLVPTKELLDQWAEALKKFLLLNDEIGIYG 114
Query: 64 LE 65
Sbjct: 115 GG 116
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 32.4 bits (74), Expect = 0.068
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 68 CLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 123
LE + ++ ++ PTS GKT+V E I L+ Q+ I+ P +L ++KY+ L
Sbjct: 130 ILE--RGESVLVCAPTSSGKTVVAEYAIALALRDGQRV-IYTSPIKALSNQKYRDL 182
Score = 31.6 bits (72), Expect = 0.11
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 53
+ ++ ++ PTS GKT+V E I L+ Q+ I+ P +L ++KY+ L
Sbjct: 133 RGESVLVCAPTSSGKTVVAEYAIALALRDGQRV-IYTSPIKALSNQKYRDL 182
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 29.5 bits (67), Expect = 0.23
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 72 IQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 116
++ K ++ + T GKTL ++ L +K +F++P L+
Sbjct: 16 LEKKRGLIVMATGSGKTLTA-AALIARLAKGKKKVLFVVPRKDLL 59
Score = 28.7 bits (65), Expect = 0.44
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46
++ K ++ + T GKTL ++ L +K +F++P L+
Sbjct: 16 LEKKRGLIVMATGSGKTLTA-AALIARLAKGKKKVLFVVPRKDLL 59
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 30.1 bits (68), Expect = 0.32
Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKS-AIFILPYISLVHEKYQSLAKAAEEFKF 62
+N V++ T GKT + I+ L + A+ + P +L +++ + L + +
Sbjct: 86 RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPG 144
Score = 30.1 bits (68), Expect = 0.32
Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKS-AIFILPYISLVHEKYQSLAKAAEEFKF 132
+N V++ T GKT + I+ L + A+ + P +L +++ + L + +
Sbjct: 86 RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPG 144
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 29.1 bits (66), Expect = 0.75
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 7/64 (10%)
Query: 3 QNKNCVLSIPTSGGKTLVG--EILIMKELKIKQKSAIFILPYIS----LVHEKYQSLAKA 56
+ ++ +L PT GKTL G LI K K + L YI+ L + ++L
Sbjct: 27 EGRSGLLIAPTGSGKTLAGFLPSLIDLAGPEKPKKGLHTL-YITPLRALAVDIARNLQAP 85
Query: 57 AEEF 60
EE
Sbjct: 86 IEEL 89
Score = 29.1 bits (66), Expect = 0.75
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 7/64 (10%)
Query: 73 QNKNCVLSIPTSGGKTLVG--EILIMKELKIKQKSAIFILPYIS----LVHEKYQSLAKA 126
+ ++ +L PT GKTL G LI K K + L YI+ L + ++L
Sbjct: 27 EGRSGLLIAPTGSGKTLAGFLPSLIDLAGPEKPKKGLHTL-YITPLRALAVDIARNLQAP 85
Query: 127 AEEF 130
EE
Sbjct: 86 IEEL 89
>gnl|CDD|222875 PHA02558, uvsW, UvsW helicase; Provisional.
Length = 501
Score = 28.8 bits (65), Expect = 0.84
Identities = 16/51 (31%), Positives = 29/51 (56%)
Query: 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120
E ++N +L++PTS GK+L+ +L L+ + + I+P SLV +
Sbjct: 125 EGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMI 175
Score = 27.3 bits (61), Expect = 3.3
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 50
++N +L++PTS GK+L+ +L L+ + + I+P SLV +
Sbjct: 127 LKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMI 175
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 27.7 bits (62), Expect = 2.1
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59
V+ K+ + PT GKT G +L+ L K K I+P +LV + Y+ L K AE+
Sbjct: 95 VRGKSFAIIAPTGVGKTTFG-LLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAED 151
Score = 27.7 bits (62), Expect = 2.2
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 75 KNCVLSI--PTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129
+ +I PT GKT G +L+ L K K I+P +LV + Y+ L K AE+
Sbjct: 96 RGKSFAIIAPTGVGKTTFG-LLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAED 151
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 27.4 bits (61), Expect = 2.9
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 8/54 (14%)
Query: 72 IQNKNCVLSIPTSGGKTLVGEI--LIMKELKIKQKSAIFILPYISLVHEKYQSL 123
+ ++C++ +PT GGK+L +I L++ L + + P ISL+ ++ L
Sbjct: 38 LSGRDCLVVMPTGGGKSLCYQIPALVLDGL------TLVVSPLISLMKDQVDQL 85
Score = 27.4 bits (61), Expect = 3.3
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 8/54 (14%)
Query: 2 VQNKNCVLSIPTSGGKTLVGEI--LIMKELKIKQKSAIFILPYISLVHEKYQSL 53
+ ++C++ +PT GGK+L +I L++ L + + P ISL+ ++ L
Sbjct: 38 LSGRDCLVVMPTGGGKSLCYQIPALVLDGL------TLVVSPLISLMKDQVDQL 85
>gnl|CDD|201024 pfam00129, MHC_I, Class I Histocompatibility antigen, domains alpha
1 and 2.
Length = 178
Score = 26.6 bits (59), Expect = 3.7
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 54 AKAAEEFKFYLEGKCLE 70
A AE + YLEG+C+E
Sbjct: 149 AGEAERERAYLEGECVE 165
>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ. The
ATP-dependent DNA helicase RecQ of E. coli is about 600
residues long. This model represents bacterial proteins
with a high degree of similarity in domain architecture
and in primary sequence to E. coli RecQ. The model
excludes eukaryotic and archaeal proteins with
RecQ-like regions, as well as more distantly related
bacterial helicases related to RecQ [DNA metabolism,
DNA replication, recombination, and repair].
Length = 591
Score = 27.0 bits (60), Expect = 4.5
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 8/50 (16%)
Query: 6 NCVLSIPTSGGKTLVGEI--LIMKELKIKQKSAIFILPYISLVHEKYQSL 53
+ ++ +PT GGK+L ++ L++K L + I P ISL+ ++ L
Sbjct: 30 DVLVVMPTGGGKSLCYQVPALLLKGL------TVVISPLISLMKDQVDQL 73
Score = 27.0 bits (60), Expect = 4.5
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 8/50 (16%)
Query: 76 NCVLSIPTSGGKTLVGEI--LIMKELKIKQKSAIFILPYISLVHEKYQSL 123
+ ++ +PT GGK+L ++ L++K L + I P ISL+ ++ L
Sbjct: 30 DVLVVMPTGGGKSLCYQVPALLLKGL------TVVISPLISLMKDQVDQL 73
>gnl|CDD|236281 PRK08517, PRK08517, DNA polymerase III subunit epsilon;
Provisional.
Length = 257
Score = 25.8 bits (57), Expect = 8.6
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 17/95 (17%)
Query: 58 EEFKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAI---------- 107
+E L+ + + C + I T+G K +I+ + +K+K I
Sbjct: 52 KENLITLKTRFTPIKDQVFCFVDIETNGSKPKKHQIIEIGAVKVKNGEIIDRFESFVKAK 111
Query: 108 FILPYISLVH-------EKYQSLAKAAEEFKFYLE 135
+ YI+ + E SL + EEF+ +L
Sbjct: 112 EVPEYITELTGITYEDLENAPSLKEVLEEFRLFLG 146
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 26.0 bits (58), Expect = 9.1
Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 64 LEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 123
L L+ KN ++ +PT GKT + ++I + L K + + P LV + +
Sbjct: 23 LAATALK----KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFF 78
Query: 124 AKA 126
K
Sbjct: 79 RKF 81
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
0.320 0.137 0.372
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,779,437
Number of extensions: 601709
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 543
Number of HSP's successfully gapped: 60
Length of query: 138
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 51
Effective length of database: 7,078,804
Effective search space: 361019004
Effective search space used: 361019004
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 (21.8 bits)
S2: 54 (24.8 bits)