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= psy11344
(586 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4I4T|F Chain F, Crystal Structure Of Tubulin-rb3-ttl-zampanolide Complex
pdb|4I50|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-epothilone A
Complex
pdb|4I55|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl Complex
pdb|4IIJ|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-apo Complex
pdb|4IHJ|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-adp Complex
Length = 384
Score = 90.9 bits (224), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 86/292 (29%), Positives = 130/292 (44%), Gaps = 42/292 (14%)
Query: 42 QYTNHIPKASSICRKDQLTRYLKSMKKIFGSIYNFSPEAYNL-PLEYTKLVA-------- 92
Q N+ A +CRK L + +K+ ++ S F PE+Y + P VA
Sbjct: 60 QLVNYYRGADKLCRKASLVKLIKTSPELSESCTWF-PESYVIYPTNLKTPVAPAQNGIRH 118
Query: 93 ----------ECSRQARNSTYENPD-NVWICKPVGQSQGRGILLFQRLSELV-----YES 136
E A N E + NVWI K ++G GIL+ SEL+
Sbjct: 119 LINNTRTDEREVFLAAYNRRREGREGNVWIAKSSAGAKGEGILISSEASELLDFIDEQGQ 178
Query: 137 NAVVQQYVKNPLLI--GGYKFDLRLYVCVPSFHPLTIFVYREGLARFGTDKFSLANLDNP 194
V+Q+Y++ PLL+ G KFD+R +V V H I++YREG+ R ++ ++ AN +
Sbjct: 179 VHVIQKYLEKPLLLEPGHRKFDIRSWVLVD--HLYNIYLYREGVLRTSSEPYNSANFQDK 236
Query: 195 FAHLTNSSLNKLGPGYGTTKERVGSGCKWSLSQLRQYLYQ---NNIQDWLLWQRISSII- 250
HLTN + K Y R G + + QYL +++ +L Q I II
Sbjct: 237 TCHLTNHCIQK---EYSKNYGRYEEGNEMFFEEFNQYLMDALNTTLENSILLQ-IKHIIR 292
Query: 251 --VLTIASELSAIPQTKNCFEFFGFDILVDSSLNPWLLESQPDTAPGTNKDL 300
++ I +S F+ FGFD +VD L WL+E + AP + L
Sbjct: 293 SCLMCIEPAISTKHLHYQSFQLFGFDFMVDEELKVWLIEV--NGAPACAQKL 342
>pdb|3TIG|A Chain A, Tubulin Tyrosine Ligase
pdb|3TII|A Chain A, Tubulin Tyrosine Ligase
pdb|3TII|B Chain B, Tubulin Tyrosine Ligase
pdb|3TIN|A Chain A, Tubulin Tyrosine Ligase
Length = 380
Score = 88.6 bits (218), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 88/294 (29%), Positives = 143/294 (48%), Gaps = 46/294 (15%)
Query: 42 QYTNHIPKASSICRKDQLTRYLKSMKKIFGSIYNFSPEAYNLPLEYTKLVA--------- 92
Q N+ A +CRK L + +K+ ++ + F PE+Y + K A
Sbjct: 63 QLVNYYRGADKLCRKASLVKLIKTSPELTETCTWF-PESYVIYPTNEKTPAMRARNGLPD 121
Query: 93 ----------ECSRQARNSTYENPD-NVWICKPVGQSQGRGILLFQRLSELV-YESNA-- 138
E R + N EN + NVWI K ++G GIL+ +EL+ + N
Sbjct: 122 LANAPRTDEREEFRSSFNKKKENEEGNVWIAKSSSGAKGEGILISSDATELLDFIDNQGQ 181
Query: 139 --VVQQYVKNPLLI--GGYKFDLRLYVCVPSFHPLTIFVYREGLARFGTDKFSLANLDNP 194
V+Q+Y+++PLL+ G KFD+R +V V + + I++YREG+ R ++ +S N +
Sbjct: 182 VHVIQKYLESPLLLEPGHRKFDIRSWVLVDNQY--NIYLYREGVLRTSSEPYSDTNFQDM 239
Query: 195 FAHLTNSSLNK-LGPGYGTTKERVGSGCKWSLSQLRQYLYQN---NIQDWLLWQRISSII 250
+HLTN + K YG +E G + + QYL + N+++ +L Q I II
Sbjct: 240 TSHLTNHCIQKEHSKNYGRYEE----GNEMFFEEFNQYLVTSLNINLENSILCQ-IKEII 294
Query: 251 VLTIASELSAIPQTK----NCFEFFGFDILVDSSLNPWLLESQPDTAPGTNKDL 300
+ ++ AI TK + F+ FGFD +VD +L WL+E + AP + L
Sbjct: 295 RVCLSCLEPAI-STKYLPYHSFQLFGFDFMVDKNLKVWLIEV--NGAPACAQKL 345
>pdb|4IFD|B Chain B, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 248
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 55/115 (47%), Gaps = 11/115 (9%)
Query: 466 PDQTDNVDSDKALRNIAFNVAKFNKLSK-EIFRKNEKQCDDELNFLLQTSLGMKTE---- 520
P +D+ KAL N++ N+ KF+K + + KNE++ +QTSL E
Sbjct: 61 PRLKSQMDTSKALLNVSVNITKFSKFERSKSSHKNERRV-----LEIQTSLVRMFEKNVM 115
Query: 521 VNLSPALANDCEVDPAVKK-PMLHDMFDLLGLPVCNTGLSLFTLWTSLAQRHYTT 574
+N+ P D E+ + ++ + + + L + + G+S+F + ++ Y T
Sbjct: 116 LNIYPRTVIDIEIHVLEQDGGIMGSLINGITLALIDAGISMFDYISGISVGLYDT 170
>pdb|2WP8|B Chain B, Yeast Rrp44 Nuclease
Length = 246
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 55/115 (47%), Gaps = 11/115 (9%)
Query: 466 PDQTDNVDSDKALRNIAFNVAKFNKLSK-EIFRKNEKQCDDELNFLLQTSLGMKTE---- 520
P +D+ KAL N++ N+ KF+K + + KNE++ +QTSL E
Sbjct: 59 PRLKSQMDTSKALLNVSVNINKFSKFERSKSSHKNERRV-----LEIQTSLVRMFEKNVM 113
Query: 521 VNLSPALANDCEVDPAVKK-PMLHDMFDLLGLPVCNTGLSLFTLWTSLAQRHYTT 574
+N+ P D E+ + ++ + + + L + + G+S+F + ++ Y T
Sbjct: 114 LNIYPRTVIDIEIHVLEQDGGIMGSLINGITLALIDAGISMFDYISGISVGLYDT 168
>pdb|4GS5|A Chain A, The Crystal Structure Of Acyl-Coa Synthetase
(Amp-Forming)AMP-Acid Ligase Ii-Like Protein From
Dyadobacter Fermentans Dsm 18053
Length = 358
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 10/71 (14%)
Query: 64 KSMKKIFGSIYNFSPEAYNLPLEYTKLVAECSRQARNSTYENPDNVWICKPVGQSQGRGI 123
K +K+ I N PEA +L AE ++R STYENP +++ K ++Q I
Sbjct: 291 KLGQKLVLVIENAXPEALT-----ERLTAEI--RSRVSTYENPKHIYFAKAFAKTQTDKI 343
Query: 124 ---LLFQRLSE 131
FQ+LS+
Sbjct: 344 DKRATFQKLSD 354
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group P21212
pdb|1ZU5|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
pdb|1ZU5|B Chain B, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
Length = 320
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 31/56 (55%), Gaps = 11/56 (19%)
Query: 475 DKALRNIAFNVAK-FNKLSKEIFRKNEKQCDDEL-----NFLLQTSLGMKTEVNLS 524
+KA+ AFN +K KLSK+ KQ DDE + L+QT +GMK + +S
Sbjct: 8 EKAMLKSAFNFSKDIKKLSKKY-----KQADDEFFEELEDVLIQTDMGMKMVLKVS 58
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.134 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,609,376
Number of Sequences: 62578
Number of extensions: 798571
Number of successful extensions: 2010
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2004
Number of HSP's gapped (non-prelim): 8
length of query: 586
length of database: 14,973,337
effective HSP length: 104
effective length of query: 482
effective length of database: 8,465,225
effective search space: 4080238450
effective search space used: 4080238450
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: 54 (25.4 bits)