RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16565
(377 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 = 73.3 bits (181), Expect = 6e-16
Identities = 24/129 (18%), Positives = 52/129 (40%), Gaps = 8/129 (6%)
Query: 140 EIFDEKLHPLTRDPVPEDYD----RYPPEHRQIY-KFIRTLFNAAQLTAECAIITLVYLE 194
+I+ D P DY P+ R I ++ + +L E + + YL+
Sbjct: 1 DIYAYLRELEEEDRPPPDYLDQQPDINPKMRAILIDWLVEVHEEFKLLPETLYLAVNYLD 60
Query: 195 RLLTYAEVDITPGNWKRIVLGAILLASKVWDDQAVWNVDYCQILKDI-SVEDMNELERQF 253
R L+ V + + + +L+A+K + D+ I + + E++ +E
Sbjct: 61 RFLSKQPV--PRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAYTKEEILRMELLI 118
Query: 254 LEMLQFNIN 262
L L ++++
Sbjct: 119 LSTLNWDLS 127
>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 = 49.5 bits (119), Expect = 5e-08
Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 3/86 (3%)
Query: 170 KFIRTLFNAAQLTAECAIITLVYLERLLTYAEVDITPGNWKRIVLGAILLASKVWDDQAV 229
F+R + A L E + + L+R ++ + I A+ LASK +
Sbjct: 1 DFLRRVCKALNLDPETLNLAVNLLDR--FLSDYKFLKYSPSLIAAAALYLASKTEETP-P 57
Query: 230 WNVDYCQILKDISVEDMNELERQFLE 255
W + + E++ +ER LE
Sbjct: 58 WTKELVHYTGYFTEEEILRMERLLLE 83
>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 = 44.2 bits (105), Expect = 4e-06
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 3/89 (3%)
Query: 166 RQIYKFIRTLFNAAQLTAECAIITLVYLERLLTYAEVDITPGNWKRIVLGAILLASKVWD 225
F+R + A L+ E + + L+R + + + + A+ LA+KV +
Sbjct: 3 PTPLDFLRRVAKALGLSPETLTLAVNLLDR--FLLDYSVLGRSPSLVAAAALYLAAKVEE 60
Query: 226 DQAVWNVDYCQILKDISVEDMNELERQFL 254
W D + + E++ +E+ L
Sbjct: 61 I-PPWLKDLVHVTGYATEEEILRMEKLLL 88
>gnl|CDD|204002 pfam08613, Cyclin, Cyclin. This family includes many different
cyclin proteins. Members include the G1/S-specific
cyclin pas1, and the phosphate system cyclin
PHO80/PHO85.
Length = 140
Score = 43.9 bits (104), Expect = 2e-05
Identities = 21/80 (26%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 185 CAIITLVYLERLLT---YAEVDITPGNWKRIVLGAILLASKVWDDQAVWNVDYCQILKDI 241
+ L+YL+R++ + +T N R++L A+ +A+K D + N + + + I
Sbjct: 62 VLLSALIYLDRIVKRCDKPTITVTSLNVHRLLLTALTVATKFLSDGSYSNSRFAK-VGGI 120
Query: 242 SVEDMNELERQFLEMLQFNI 261
S+ ++N LE FL ++ F++
Sbjct: 121 SLHELNHLEIDFLFLVDFDL 140
>gnl|CDD|115336 pfam06673, L_lactis_ph-MCP, Lactococcus lactis bacteriophage major
capsid protein. This family consists of several
Lactococcus lactis bacteriophage major capsid proteins.
Length = 347
Score = 29.4 bits (65), Expect = 3.3
Identities = 14/43 (32%), Positives = 28/43 (65%), Gaps = 3/43 (6%)
Query: 214 LGAILLASKVW---DDQAVWNVDYCQILKDISVEDMNELERQF 253
GA+ L ++VW D+ AV+N D ++ D++VE+ N+ + ++
Sbjct: 276 FGAVNLETRVWMPKDEVAVYNHDEYVLIGDLNVENYNDFDLRY 318
>gnl|CDD|218403 pfam05055, DUF677, Protein of unknown function (DUF677). This
family consists of AT14A like proteins from Arabidopsis
thaliana. At14a has a small domain that has sequence
similarities to integrins from fungi, insects and
humans. Transcripts of At14a are found in all
Arabidopsis tissues and localises partly to the plasma
membrane.
Length = 336
Score = 28.2 bits (63), Expect = 8.1
Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 13/81 (16%)
Query: 306 YAKYYFDLRSLAESNDLTFPAEPLS-------KERAQKLEAMSRIME--DKMLRNNIKKW 356
Y K +L+ D F E + K++ LE + + + DK LRN IK W
Sbjct: 122 YEKTLEELKKFKAMGD-PFDGEEFTTQFQSVYKQQVLMLEELRKTKKKLDKKLRN-IKTW 179
Query: 357 SSLDNVNFANQGSRKSIAILS 377
+ NV F + ++ +LS
Sbjct: 180 RIISNVVFV--AAFVAVLVLS 198
>gnl|CDD|165308 PHA03007, PHA03007, hypothetical protein; Provisional.
Length = 540
Score = 28.0 bits (62), Expect = 9.2
Identities = 12/61 (19%), Positives = 23/61 (37%), Gaps = 7/61 (11%)
Query: 79 QYNKNFSHIAADNRPLKKSSSCSTIYLDDSTVSQPNLKNTVKCSALAIYYYIKNGNSYKY 138
++N+ F + +N P+ K +DD + +C I YI N+
Sbjct: 383 KFNEKFFNFLFNNNPISKD-------IDDIKMKIELNYKKNECGLDYIDKYIDIYNTVNL 435
Query: 139 L 139
+
Sbjct: 436 I 436
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
0.316 0.131 0.381
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,244,923
Number of extensions: 1859205
Number of successful extensions: 1707
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1700
Number of HSP's successfully gapped: 17
Length of query: 377
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 279
Effective length of database: 6,590,910
Effective search space: 1838863890
Effective search space used: 1838863890
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 (21.6 bits)
S2: 60 (26.9 bits)