RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14722
(87 letters)
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain. Cyclins regulate
cyclin dependent kinases (CDKs). Human cyclin-O is a
Uracil-DNA glycosylase that is related to other
cyclins. Cyclins contain two domains of similar
all-alpha fold, of which this family corresponds with
the N-terminal domain.
Length = 127
Score = 74.5 bits (184), Expect = 6e-19
Identities = 27/48 (56%), Positives = 38/48 (79%)
Query: 40 IIEVAEEYKMHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVAS 87
++EV EE+K+ ETL+LA+NY+DRFLS V R+KLQL+G T L +A+
Sbjct: 38 LVEVHEEFKLLPETLYLAVNYLDRFLSKQPVPRTKLQLVGVTCLLIAA 85
Score = 61.8 bits (151), Expect = 5e-14
Identities = 23/42 (54%), Positives = 31/42 (73%)
Query: 1 MHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVASIIE 42
+ ETL+LA+NY+DRFLS V R+KLQL+G T L +A+ E
Sbjct: 47 LLPETLYLAVNYLDRFLSKQPVPRTKLQLVGVTCLLIAAKYE 88
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and
Retinoblastoma. A helical domain present in cyclins
and TFIIB (twice) and Retinoblastoma (once). A protein
recognition domain functioning in cell-cycle and
transcription control.
Length = 83
Score = 50.3 bits (121), Expect = 7e-10
Identities = 17/48 (35%), Positives = 28/48 (58%)
Query: 40 IIEVAEEYKMHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVAS 87
+ V + + ETL+LA+N +DRFLS ++ L+ AL++AS
Sbjct: 3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAS 50
Score = 44.1 bits (105), Expect = 1e-07
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 1 MHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVASIIE 42
+ ETL+LA+N +DRFLS ++ L+ AL++AS E
Sbjct: 12 LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTE 53
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold. Protein binding domain
functioning in cell-cycle and transcription control.
Present in cyclins, TFIIB and Retinoblastoma (RB).The
cyclins consist of 8 classes of cell cycle regulators
that regulate cyclin dependent kinases (CDKs). TFIIB is
a transcription factor that binds the TATA box.
Cyclins, TFIIB and RB contain 2 copies of the domain.
Length = 88
Score = 49.9 bits (120), Expect = 1e-09
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 40 IIEVAEEYKMHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVAS 87
+ VA+ + ETL LA+N +DRFL SV+ L+ AL++A+
Sbjct: 9 LRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAA 56
Score = 44.2 bits (105), Expect = 2e-07
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 1 MHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVASIIE 42
+ ETL LA+N +DRFL SV+ L+ AL++A+ +E
Sbjct: 18 LSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVE 59
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome
partitioning].
Length = 440
Score = 48.6 bits (116), Expect = 3e-08
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 15 RFLSLMSVVR--SKLQLL--GTTALFVASIIEVAEEYKMHNETLHLAINYVDRFLSLMSV 70
L + K L ++ V ++EV ++ + ETL LAIN +DRFLS V
Sbjct: 191 LELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVV 250
Query: 71 VRSKLQLLGTTALFVAS 87
K QL+G +ALF+AS
Sbjct: 251 SLEKYQLVGISALFIAS 267
Score = 46.3 bits (110), Expect = 2e-07
Identities = 23/39 (58%), Positives = 27/39 (69%)
Query: 4 ETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVASIIE 42
ETL LAIN +DRFLS V K QL+G +ALF+AS E
Sbjct: 232 ETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYE 270
>gnl|CDD|217188 pfam02689, Herpes_Helicase, Helicase. This family consists of
Helicases from the Herpes viruses. Helicases are
responsible for the unwinding of DNA and are essential
for replication and completion of the viral life cycle.
Length = 801
Score = 26.9 bits (60), Expect = 1.2
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 10 INYVDRFLSLMSVVRSKLQLLGTTALFVASIIEVAEEYKMHNETLHLAI 58
+ YVDRF+ S + + L+G T LF++ +E K + +LH +
Sbjct: 320 MEYVDRFVVPESYINNPANLVGWTRLFLSH-----KEVKAYLSSLHAHL 363
Score = 26.1 bits (58), Expect = 2.3
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 58 INYVDRFLSLMSVVRSKLQLLGTTALFV 85
+ YVDRF+ S + + L+G T LF+
Sbjct: 320 MEYVDRFVVPESYINNPANLVGWTRLFL 347
>gnl|CDD|227640 COG5333, CCL1, Cdk activating kinase (CAK)/RNA polymerase II
transcription initiation/nucleotide excision repair
factor TFIIH/TFIIK, cyclin H subunit [Cell division and
chromosome partitioning / Transcription / DNA
replication, recombination, and repair].
Length = 297
Score = 26.2 bits (58), Expect = 2.1
Identities = 12/48 (25%), Positives = 21/48 (43%)
Query: 40 IIEVAEEYKMHNETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVAS 87
I+++ + L AI + RF SV L + TT +++A
Sbjct: 52 IMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLAC 99
Score = 26.2 bits (58), Expect = 2.5
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 4 ETLHLAINYVDRFLSLMSVVRSKLQLLGTTALFVASIIEVAEEYKMHNETLHLAIN 59
L AI + RF SV L + TT +++A + E+
Sbjct: 64 TVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKV---EDTPRDISIESFEAR 116
>gnl|CDD|223040 PHA03311, PHA03311, helicase-primase subunit BBLF4; Provisional.
Length = 782
Score = 26.0 bits (58), Expect = 2.5
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 10 INYVDRFLSLMSVVRSKLQLLGTTALFV 37
+ YVDRF+ S +R+ L G T LF+
Sbjct: 331 MEYVDRFVVPESYIRNPANLPGWTRLFL 358
Score = 26.0 bits (58), Expect = 2.5
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 58 INYVDRFLSLMSVVRSKLQLLGTTALFV 85
+ YVDRF+ S +R+ L G T LF+
Sbjct: 331 MEYVDRFVVPESYIRNPANLPGWTRLFL 358
>gnl|CDD|183107 PRK11376, hlyE, hemolysin E; Provisional.
Length = 303
Score = 24.7 bits (53), Expect = 7.5
Identities = 15/60 (25%), Positives = 26/60 (43%)
Query: 16 FLSLMSVVRSKLQLLGTTALFVASIIEVAEEYKMHNETLHLAINYVDRFLSLMSVVRSKL 75
F +L + V+ + + L + + I E K ET ++Y D LSL+ K+
Sbjct: 222 FTTLSNTVKQANKDIDAAKLKLTTEIAAIGEIKTETETTRFYVDYDDLMLSLLKEAAKKM 281
>gnl|CDD|218493 pfam05199, GMC_oxred_C, GMC oxidoreductase. This domain found
associated with pfam00732.
Length = 139
Score = 24.6 bits (54), Expect = 7.8
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 21 SVVRSKLQLLGTTALFV--ASII 41
VV L++ G L V AS+
Sbjct: 98 GVVDPDLRVHGVDNLRVVDASVF 120
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 24.3 bits (53), Expect = 10.0
Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 6/82 (7%)
Query: 10 INYVDRFLSLMSVVRSKLQLLGTTALFVASIIEVAEEYKMHN------ETLHLAINYVDR 63
+ +D FLS +V + + I E+ E+ L L +N
Sbjct: 86 LAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITELTLYLNDPAL 145
Query: 64 FLSLMSVVRSKLQLLGTTALFV 85
++ +++ L+ LG T+L
Sbjct: 146 VRRILLLLKRFLKKLGVTSLLT 167
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
0.326 0.135 0.358
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,123,969
Number of extensions: 323165
Number of successful extensions: 374
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 23
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
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 (21.7 bits)
S2: 53 (24.1 bits)