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= 027312
(225 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q54S04|RPB4_DICDI DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium
discoideum GN=polr2d PE=3 SV=1
Length = 155
Score = 57.8 bits (138), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 68/129 (52%), Gaps = 16/129 (12%)
Query: 108 KNAKCLMDCEAAHILE---GIQEQ----------MALLSADPTIKIPVSFDKGLLYAKTH 154
K+AK L++ E A +LE GI E + L + I +F K L YA+
Sbjct: 27 KDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSINDIIRTFHKTLAYAEKF 86
Query: 155 SHFTNPQAVKGLFQSLSEHGVTDGEICVIANICPETVEEAYAIVPSLKAKRSRLNDLLKE 214
S + N ++K + +LS+ + + EI +AN+CPE +EA +++PSLK +D L+
Sbjct: 87 SRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIPSLKKME---DDELQA 143
Query: 215 VLIQLAKFK 223
+L +L+ +
Sbjct: 144 ILDELSNLR 152
>sp|Q9D7M8|RPB4_MOUSE DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus
GN=Polr2d PE=2 SV=2
Length = 142
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 108 KNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTHSHFTNPQAVKGLF 167
+ A+ L++ E +LE ++Q SA+ ++ F K L Y S F N + + +
Sbjct: 27 ETAETLLNSEVHMLLEHRKQQNE--SAEDEQELSEVFMKTLNYTARFSRFKNRETIASVR 84
Query: 168 QSLSEHGVTDGEICVIANICPETVEEAYAIVPSLKAK 204
L + + E+ +AN+CPET EE+ A++PSL+ +
Sbjct: 85 SLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR 121
>sp|O15514|RPB4_HUMAN DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens
GN=POLR2D PE=1 SV=1
Length = 142
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 108 KNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTHSHFTNPQAVKGLF 167
+ A+ L++ E +LE ++Q SA+ ++ F K L Y S F N + + +
Sbjct: 27 ETAETLLNSEVHMLLEHRKQQNE--SAEDEQELSEVFMKTLNYTARFSRFKNRETIASVR 84
Query: 168 QSLSEHGVTDGEICVIANICPETVEEAYAIVPSLKAK 204
L + + E+ +AN+CPET EE+ A++PSL+ +
Sbjct: 85 SLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR 121
>sp|Q9VEA5|RPB4_DROME DNA-directed RNA polymerase II 16 kDa polypeptide OS=Drosophila
melanogaster GN=Rpb4 PE=2 SV=5
Length = 139
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 2/97 (2%)
Query: 108 KNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTHSHFTNPQAVKGLF 167
+NA+ L+ E +L+ + Q SAD + F K Y + F N + +
Sbjct: 24 ENAETLLISEVHMLLDHRKRQNE--SADEEQEFSEVFMKTYAYTDSFRKFKNKETIMSAR 81
Query: 168 QSLSEHGVTDGEICVIANICPETVEEAYAIVPSLKAK 204
L + + E+ + N+CPE EEA A++PSL+ +
Sbjct: 82 SLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGR 118
>sp|O94826|TOM70_HUMAN Mitochondrial import receptor subunit TOM70 OS=Homo sapiens
GN=TOMM70A PE=1 SV=1
Length = 608
Score = 36.6 bits (83), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 37/82 (45%)
Query: 95 ALPLELRVEQELPKNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTH 154
AL + ++L +CL D A ILEG Q Q ++L AD +K+ Y
Sbjct: 189 ALFRRAKAHEKLDNKKECLEDVTAVCILEGFQNQQSMLLADKVLKLLGKEKAKEKYKNRE 248
Query: 155 SHFTNPQAVKGLFQSLSEHGVT 176
+PQ +K F S ++ ++
Sbjct: 249 PLMPSPQFIKSYFSSFTDDIIS 270
>sp|Q75Q39|TOM70_RAT Mitochondrial import receptor subunit TOM70 OS=Rattus norvegicus
GN=Tomm70a PE=1 SV=1
Length = 610
Score = 36.2 bits (82), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 95 ALPLELRVEQELPKNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTH 154
AL + ++L +CL D A ILEG Q + ++L AD +K+ + Y
Sbjct: 191 ALFRRAKAHEKLDNKKECLEDVTAVCILEGFQNEQSMLLADKVLKLLGKENAKEKYKNRE 250
Query: 155 SHFTNPQAVKGLFQSLSEHGVT 176
+PQ +K F S ++ ++
Sbjct: 251 PLMPSPQFIKSYFSSFTDDIIS 272
>sp|Q9CZW5|TOM70_MOUSE Mitochondrial import receptor subunit TOM70 OS=Mus musculus
GN=Tomm70a PE=1 SV=2
Length = 611
Score = 36.2 bits (82), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 95 ALPLELRVEQELPKNAKCLMDCEAAHILEGIQEQMALLSADPTIKIPVSFDKGLLYAKTH 154
AL + ++L +CL D A ILEG Q + ++L AD +K+ + Y
Sbjct: 192 ALFRRAKAHEKLDNKKECLEDVTAVCILEGFQNEQSMLLADKVLKLLGKENAKEKYKNRE 251
Query: 155 SHFTNPQAVKGLFQSLSEHGVT 176
+PQ +K F S ++ ++
Sbjct: 252 PLMPSPQFIKSYFSSFTDDIIS 273
>sp|A2BZ41|TIG_PROM5 Trigger factor OS=Prochlorococcus marinus (strain MIT 9515) GN=tig
PE=3 SV=1
Length = 473
Score = 35.4 bits (80), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 59/217 (27%), Positives = 90/217 (41%), Gaps = 28/217 (12%)
Query: 26 SLGGKDDNSAKSKRGRKVQFNT-------EGLSEGKFTFSSKSDGKFETTYGKGGLTKGG 78
+L DD S + RG++ F + L E F+ +S K K + K
Sbjct: 229 NLKFPDDYSHEESRGKEAIFEVSLKDLKEKELPELNDDFAKQSGNKDSLKELKKDIEKQL 288
Query: 79 KG--DKVANGAKVSVVKEALPLELRVEQELPKNAKCLMDCEAAHILEGIQEQMALLSADP 136
K D K+ + +AL EL + E+PK ++D E + +E ++ A D
Sbjct: 289 KENFDNTQKNIKIEALMDALSKEL--DAEIPK---AMIDIEVRNNIEQTAQRFAQQGMD- 342
Query: 137 TIKIPVSFDKGLLYAKTHSHFTNPQAVKGL-----FQSLSEH---GVTDGEICVIANICP 188
I +F L+ KT + T PQA K + ++LSE V D EI
Sbjct: 343 ---IKSTFTPELV--KTLAESTRPQAEKNVQRNLALKALSESENITVEDKEINQKMKEYD 397
Query: 189 ETVEEAYAIVPSLKAKRSRLNDLLKEVLIQLAKFKST 225
+ + ++ + K K LNDLLKE LI + ST
Sbjct: 398 DEISKSQKQIDIQKLKEVVLNDLLKEKLITWLEENST 434
>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 = 33.5 bits (75), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 150 YAKTHSHFTNPQAVKGLFQSLSEHGVTDGEICVIANICPETVEEAYAIVPSLKAKRSRLN 209
Y S F + + V + Q L G+ E+ + ++ +T +EA ++PSL K S +
Sbjct: 147 YLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKIS--D 204
Query: 210 DLLKEVLIQLAKFKS 224
D L+ +L +L+ ++
Sbjct: 205 DELERILKELSNLET 219
>sp|Q18B27|OBG_CLOD6 GTPase obg OS=Clostridium difficile (strain 630) GN=obg PE=3 SV=1
Length = 425
Score = 32.7 bits (73), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 74/162 (45%), Gaps = 13/162 (8%)
Query: 33 NSAKSKRGRKVQFNTEGL--SEGKFT-FSSKSDGKFETTYGKGGLTKGGKGDKVANGAKV 89
N SKR + V N + E KF F S+ +G+ T + T+ G + +A +K+
Sbjct: 269 NEKLSKRPQVVVANKFDILEDESKFEKFKSELEGRGYTVFKMSAATRQGIDEVIAYVSKM 328
Query: 90 SVVKEALPLELRVEQELPKNAKCLMDCEAAHILEGIQEQMALLS--ADPTIKIPVSFDKG 147
+KE +EL E+E+ + + E I I++ + +++ A I V+FD
Sbjct: 329 --LKEVEDVELVSEEEMYRPELDIGTEEELSI--DIEDGVYVVTGKALRRIMYSVNFDD- 383
Query: 148 LLYAKTHSHFTNPQAVKGLFQSLSEHGVTDGEICVIANICPE 189
++ +F +G+F L E G+ DG++ I + E
Sbjct: 384 ---MESLQYFQKAMESQGVFDRLREMGIEDGDVVKIYELEFE 422
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
0.311 0.132 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 89,201,921
Number of Sequences: 539616
Number of extensions: 3890671
Number of successful extensions: 25770
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 78
Number of HSP's successfully gapped in prelim test: 156
Number of HSP's that attempted gapping in prelim test: 22380
Number of HSP's gapped (non-prelim): 2640
length of query: 225
length of database: 191,569,459
effective HSP length: 113
effective length of query: 112
effective length of database: 130,592,851
effective search space: 14626399312
effective search space used: 14626399312
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 59 (27.3 bits)