RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7979
(186 letters)
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb,
E3-ligase, nuclear protein, chromosomal protein,
transcription regulation; 2.0A {Mus musculus} PDB:
3rpg_B 2h0d_A
Length = 108
Score = 62.5 bits (152), Expect = 2e-13
Identities = 26/52 (50%), Positives = 35/52 (67%)
Query: 11 KNTCPSCNIIIHQSHPLQYISFDRTMQDLVYKLVPNLQANEMKREREFYRIR 62
CP C++ +H++ PL I D+T+QD+VYKLVP L NEMKR R+FY
Sbjct: 50 SKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKNEMKRRRDFYAAH 101
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase,
nuclear protein, chromosomal protein, transcription
regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Length = 165
Score = 52.7 bits (126), Expect = 3e-09
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 3/69 (4%)
Query: 8 KKIKNTCPSCNIIIHQSHPLQYISFDRTMQDLVYKLVPNLQANEMKREREFYRIRGLPCP 67
+ CP+C + L+ D L+ K+ P+ E +ER RI
Sbjct: 87 RSGNKECPTCRKKLVSKRSLRP---DPNFDALISKIYPSRDEYEAHQERVLARINKHNNQ 143
Query: 68 KDLLLEDEE 76
+ L EE
Sbjct: 144 QALSHSIEE 152
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 33.6 bits (77), Expect = 0.005
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 11 KNTCPSCNIIIHQSHPLQYIS 31
N CP CNI++HQ+ PL S
Sbjct: 50 SNRCPKCNIVVHQTQPLSGPS 70
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 35.4 bits (81), Expect = 0.008
Identities = 26/151 (17%), Positives = 46/151 (30%), Gaps = 65/151 (43%)
Query: 19 IIIHQSHPLQYISFDRTMQDLVYKLVPN---LQANEMKREREFYRIRGLPCPKDLLLEDE 75
+ H S L++ LVP A++++ + F +I LP P + D+
Sbjct: 10 TLSHGS--LEH-VL----------LVPTASFFIASQLQEQ--FNKI--LPEPTEGFAADD 52
Query: 76 EEENTDQVNSDYHRLDEQVNVYLECSVATTSSLKTLKKRFI----RLSSQATITHLKKFV 131
E ++ L +F+ L + + + V
Sbjct: 53 E----------------------------PTTPAELVGKFLGYVSSLVEPSKVGQFDQ-V 83
Query: 132 ALKLLDE-KSKYKEIDILCNDELLGKD-HTL 160
L E ++ Y L G D H L
Sbjct: 84 LNLCLTEFENCY----------LEGNDIHAL 104
Score = 31.6 bits (71), Expect = 0.17
Identities = 23/137 (16%), Positives = 42/137 (30%), Gaps = 37/137 (27%)
Query: 25 HPL-QY---------ISFDRTMQDLVYKLVP---NLQANEMKRE---REFYRIRGL-PCP 67
H L +Y +S + LV ++V + R+ R Y + + P
Sbjct: 1762 HSLGEYAALASLADVMSIE----SLV-EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGR 1816
Query: 68 KDLLLEDEE-EENTDQVNSDYHRLDEQVN------VY--------LECSVATTSSLKTLK 112
E + ++V L E VN Y L+ + +K K
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK 1876
Query: 113 KRFIRLSSQATITHLKK 129
I L ++ ++
Sbjct: 1877 IDIIELQKSLSLEEVEG 1893
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 31.4 bits (70), Expect = 0.18
Identities = 28/183 (15%), Positives = 55/183 (30%), Gaps = 50/183 (27%)
Query: 7 KKKIKNTCPSCNIIIH---------------QSHPLQ--------YISFDRT-------- 35
++ + P+ N++I S+ +Q +++
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 36 -MQDLVYKLVPNLQANEMKREREFYRIRGLPCPKDLLLEDEEEENT----DQVNSDYHRL 90
+Q L+Y++ PN + RI + LL+ + EN V +
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN----- 255
Query: 91 DEQVNVY-LECSVATTSSLKTL-----KKRFIRLSSQATITHLKKFVALKLLDEKSKYKE 144
+ N + L C + T+ K + +S L LL KY +
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL---LKYLD 312
Query: 145 IDI 147
Sbjct: 313 CRP 315
Score = 30.6 bits (68), Expect = 0.28
Identities = 21/184 (11%), Positives = 55/184 (29%), Gaps = 53/184 (28%)
Query: 22 HQSHPLQYISFDRTMQDLVYK-LVPNLQANEMKREREFYRIRGLPCP-------KDLLLE 73
H H ++ F+ YK ++ + + + ++ +P +++
Sbjct: 1 HHHH--HHMDFETGEHQYQYKDILSVFE-DAFVDNFDCKDVQDMPKSILSKEEIDHIIMS 57
Query: 74 DEEEENTDQVNSDYHRL-----DEQVNVYLECSVATTSSLKTLKKRFIRLSSQATITHLK 128
+ T RL +Q + ++F+ + L
Sbjct: 58 KDAVSGTL-------RLFWTLLSKQEEMV---------------QKFVEEVLRINYKFLM 95
Query: 129 KFVALKLLDEKSKYK----EIDILCND-ELLGKDHTLKFVYITR----WRFRTPPLKLQY 179
+ + + + D L ND ++ K + ++R + R L+L+
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN------VSRLQPYLKLRQALLELRP 149
Query: 180 RPRI 183
+
Sbjct: 150 AKNV 153
Score = 29.8 bits (66), Expect = 0.64
Identities = 15/116 (12%), Positives = 35/116 (30%), Gaps = 21/116 (18%)
Query: 74 DEEEENTDQVNSDYHRLDEQVNVYLECSVATTSSLKTLKKRFIRLSSQATITHLKKFV-A 132
+ E + + +++D + S + +++ RL K +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS------KPYENC 246
Query: 133 LKLLDE---KSKYKEIDILCNDELLGKDHTLKFVYITRWRFRTPPLKLQYRPRIDI 185
L +L + ++ C K + TR++ T L I +
Sbjct: 247 LLVLLNVQNAKAWNAFNLSC-----------KILLTTRFKQVTDFLSAATTTHISL 291
Score = 29.4 bits (65), Expect = 0.74
Identities = 14/85 (16%), Positives = 36/85 (42%), Gaps = 15/85 (17%)
Query: 7 KKKIKNTCPSCNIIIHQSHPLQ-------YIS-----FDRTMQDLVYKLVPNLQANEMK- 53
++KI++ + N + LQ YI ++R + ++ +P ++ N +
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL-DFLPKIEENLICS 562
Query: 54 REREFYRIRGLPCPKDLLLEDEEEE 78
+ + RI L + + E+ ++
Sbjct: 563 KYTDLLRI-ALMAEDEAIFEEAHKQ 586
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 27.8 bits (62), Expect = 0.93
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 11 KNTCPSCNIIIHQSHPLQYISFDRTMQDLVYKL 43
K CP+C + + + + +R + +LV L
Sbjct: 57 KTQCPTCCVTVTEPD----LKNNRILDELVKSL 85
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.3 bits (60), Expect = 2.5
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 6/38 (15%)
Query: 3 DKGDKKKIKNTCPSCNIIIHQSHPLQYISFDRTMQDLV 40
+G I TCP C +P + I + D+V
Sbjct: 13 RRGPNLNIVLTCPECK-----VYPPK-IVERFSEGDVV 44
>1wma_A Carbonyl reductase [NADPH] 1; oxidoreductase; HET: AB3 NDP PE5 P33;
1.24A {Homo sapiens} SCOP: c.2.1.2 PDB: 3bhi_A* 3bhj_A*
3bhm_A* 2pfg_A* 1n5d_A* 2hrb_A*
Length = 276
Score = 26.6 bits (59), Expect = 5.2
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 109 KTLKKRFIRL--SSQATITHLKKFVALKLLDEKSKYKEIDILCN 150
+ L RF +L +I L+ F+ + +Y +D+L N
Sbjct: 52 EGLSPRFHQLDIDDLQSIRALRDFL-------RKEYGGLDVLVN 88
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.137 0.403
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,814,056
Number of extensions: 155760
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 18
Length of query: 186
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 98
Effective length of database: 4,244,745
Effective search space: 415985010
Effective search space used: 415985010
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 (25.0 bits)