BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy14375
(206 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9VEA5|RPB4_DROME DNA-directed RNA polymerase II 16 kDa polypeptide OS=Drosophila
melanogaster GN=Rpb4 PE=2 SV=5
Length = 139
Score = 222 bits (566), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 108/131 (82%), Positives = 117/131 (89%)
Query: 76 VVEEDAGDLQFPKEFENAETLLISEVHMLLQHRKTQNENAEEEQEFSEVFQKTLTYTERF 135
+V+EDA DLQFPKEFENAETLLISEVHMLL HRK QNE+A+EEQEFSEVF KT YT+ F
Sbjct: 9 MVDEDAADLQFPKEFENAETLLISEVHMLLDHRKRQNESADEEQEFSEVFMKTYAYTDSF 68
Query: 136 RKFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLECRFEEEELRQIL 195
RKFKN+ETI S R+LL QKKLHKFELAA+ NLCPE PEEAKALIPSLE RFE+EELRQIL
Sbjct: 69 RKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGRFEDEELRQIL 128
Query: 196 DDIQTKRSLQY 206
DDI TKRSLQY
Sbjct: 129 DDIGTKRSLQY 139
>sp|Q9D7M8|RPB4_MOUSE DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus
GN=Polr2d PE=2 SV=2
Length = 142
Score = 207 bits (526), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 104/130 (80%), Positives = 113/130 (86%)
Query: 77 VEEDAGDLQFPKEFENAETLLISEVHMLLQHRKTQNENAEEEQEFSEVFQKTLTYTERFR 136
VEEDA L FPKEFE AETLL SEVHMLL+HRK QNE+AE+EQE SEVF KTL YT RF
Sbjct: 13 VEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDEQELSEVFMKTLNYTARFS 72
Query: 137 KFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLECRFEEEELRQILD 196
+FKNRETI SVR+LL QKKLHKFELA +ANLCPET EE+KALIPSLE RFE+EEL+QILD
Sbjct: 73 RFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGRFEDEELQQILD 132
Query: 197 DIQTKRSLQY 206
DIQTKRS QY
Sbjct: 133 DIQTKRSFQY 142
>sp|O15514|RPB4_HUMAN DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens
GN=POLR2D PE=1 SV=1
Length = 142
Score = 207 bits (526), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 104/130 (80%), Positives = 113/130 (86%)
Query: 77 VEEDAGDLQFPKEFENAETLLISEVHMLLQHRKTQNENAEEEQEFSEVFQKTLTYTERFR 136
VEEDA L FPKEFE AETLL SEVHMLL+HRK QNE+AE+EQE SEVF KTL YT RF
Sbjct: 13 VEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDEQELSEVFMKTLNYTARFS 72
Query: 137 KFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLECRFEEEELRQILD 196
+FKNRETI SVR+LL QKKLHKFELA +ANLCPET EE+KALIPSLE RFE+EEL+QILD
Sbjct: 73 RFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGRFEDEELQQILD 132
Query: 197 DIQTKRSLQY 206
DIQTKRS QY
Sbjct: 133 DIQTKRSFQY 142
>sp|Q54S04|RPB4_DICDI DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium
discoideum GN=polr2d PE=3 SV=1
Length = 155
Score = 103 bits (258), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 57/140 (40%), Positives = 89/140 (63%), Gaps = 16/140 (11%)
Query: 78 EEDAGDLQFPKEFENAETLLISEVHMLLQHRKTQNENAEEE---------------QEFS 122
EED L+FP++ ++A+ LL SEV +LL+HRK +E+ E +
Sbjct: 14 EEDLTTLKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSINDII 73
Query: 123 EVFQKTLTYTERFRKFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSL 182
F KTL Y E+F ++KN+ +I VR L+++ L +FE+A++ANLCPE +EAK+LIPSL
Sbjct: 74 RTFHKTLAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIPSL 133
Query: 183 ECRFEEEELRQILDDIQTKR 202
+ + E++EL+ ILD++ R
Sbjct: 134 K-KMEDDELQAILDELSNLR 152
>sp|O74825|RPB4_SCHPO DNA-directed RNA polymerase II subunit rpb4 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpb4 PE=1 SV=1
Length = 135
Score = 79.7 bits (195), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 47/131 (35%), Positives = 71/131 (54%), Gaps = 2/131 (1%)
Query: 76 VVEEDAGDLQFPKEFENAETLLISEVHMLLQHRKTQN-ENAEEEQEFSEVFQKTLTYTER 134
+ EEDA L+ EFEN + L +SE +L++ Q E ++V +KT+ Y
Sbjct: 5 IFEEDAAQLKLGPEFENEDMLTVSEAKILIETVLAQRARETNGEIPMTDVMKKTVAYFNV 64
Query: 135 FRKFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLECRFEEEELRQI 194
F +FK E + +L + HKFE A + LC E EEA+ LIPSL + +++ L+ I
Sbjct: 65 FARFKTAEATYACERILGNR-FHKFERAQLGTLCCEDAEEARTLIPSLANKIDDQNLQGI 123
Query: 195 LDDIQTKRSLQ 205
LD++ T R Q
Sbjct: 124 LDELSTLRKFQ 134
>sp|P20433|RPB4_YEAST DNA-directed RNA polymerase II subunit RPB4 OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=RPB4 PE=1
SV=1
Length = 221
Score = 59.7 bits (143), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 49/80 (61%)
Query: 125 FQKTLTYTERFRKFKNRETITSVRNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLEC 184
+ T+ Y F +F+++ET+ +V LL LH FE+A + +L +T +EAK LIPSL
Sbjct: 141 LKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNN 200
Query: 185 RFEEEELRQILDDIQTKRSL 204
+ ++EL +IL ++ +L
Sbjct: 201 KISDDELERILKELSNLETL 220
>sp|Q03770|SSY1_YEAST SPS-sensor component SSY1 OS=Saccharomyces cerevisiae (strain ATCC
204508 / S288c) GN=SSY1 PE=1 SV=1
Length = 852
Score = 32.0 bits (71), Expect = 2.9, Method: Composition-based stats.
Identities = 31/134 (23%), Positives = 58/134 (43%), Gaps = 5/134 (3%)
Query: 29 VVSLFPRK--IQPKSNQIKSALSKSVPPRTPYSDRVSIGYIIMTHVLDQVVEEDA-GDLQ 85
+ LFP K IQ + + + S + +SI I T +L ++EE D +
Sbjct: 7 IYDLFPNKHNIQFTDSHSQEHDTSSSLAKNDTDGTISIPGSIDTGILKSIIEEQGWNDAE 66
Query: 86 FPKEFENAETLLISEVHMLLQHRKTQNE-NAEEEQEFSEVFQKTLTYTERF-RKFKNRET 143
+ + +++ + +H ++ + EEEQ + E Q TY +R R+++ RE
Sbjct: 67 LYRSSIQNQRFFLTDKYTKKKHLTMEDMLSPEEEQIYQEPIQDFQTYNKRVQREYELRER 126
Query: 144 ITSVRNLLTQKKLH 157
+ T+ LH
Sbjct: 127 MEEFFRQNTKNDLH 140
>sp|Q8UW64|PSB9_ORYLA Proteasome subunit beta type-9 OS=Oryzias latipes GN=psmb9 PE=3
SV=1
Length = 217
Score = 32.0 bits (71), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 17 LLSTSRISPGDCVVSLFPRKIQPKSNQIKSALSKSVPPRTPYSDRVSIGYIIMTHVLDQV 76
L S SR+S GD VV+ K+ P ++I ALS S ++ V+ Y + H L+
Sbjct: 32 LGSDSRVSAGDSVVNRVMNKLSPLHDKIYCALSGSAADAQTIAEMVN--YQLDVHSLE-- 87
Query: 77 VEED 80
++ED
Sbjct: 88 IDED 91
>sp|Q24618|EXU1_DROPS Maternal protein exuperantia-1 OS=Drosophila pseudoobscura
pseudoobscura GN=exu1 PE=3 SV=2
Length = 495
Score = 31.2 bits (69), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 48/100 (48%), Gaps = 13/100 (13%)
Query: 97 LISEVHMLLQHRKTQNENAEEEQEFSEV----FQKTLTYTERFRKFK-----NRETITSV 147
L+S M LQ TQNEN + F V F+ TL + R KF+ N T+ S+
Sbjct: 277 LVSSDIMELQ---TQNENMGRQNSFRPVFLNYFRTTLYHRVRAVKFRIVLAENGFTLDSL 333
Query: 148 RNLLTQKKLHKFELAAIANLCPETPEEAKALIPSLECRFE 187
+ + T+K+ EL A+ N+ EE L+ L+ F+
Sbjct: 334 KAIWTEKRKEGLEL-ALTNIDTLKTEEKTELVELLDSFFD 372
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.316 0.131 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 70,508,317
Number of Sequences: 539616
Number of extensions: 2622266
Number of successful extensions: 9600
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 9571
Number of HSP's gapped (non-prelim): 67
length of query: 206
length of database: 191,569,459
effective HSP length: 112
effective length of query: 94
effective length of database: 131,132,467
effective search space: 12326451898
effective search space used: 12326451898
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.9 bits)