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= psy6156
(176 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QBK|B Chain B, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear
Transport Complex
Length = 890
Score = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 34/150 (22%), Positives = 59/150 (39%), Gaps = 14/150 (9%)
Query: 33 DSCVRKCSVFCMVALYKVTR---------ILFPLIIAEEHPINLVAIKMLTKVIEQNGKG 83
D +RKCS + L V R +L L+ E + I +L + E +G
Sbjct: 372 DWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCXQG 431
Query: 84 PVELFLPNIMPALLQAYENQDSCVRKCSVFCMVALYKEFGESVLSPYINKLSGAKLKLLQ 143
+ +LP ++P L+Q ++ + VR + + + Y+ L LK +
Sbjct: 432 XIP-YLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLXTELLKRIL 490
Query: 144 LYIKRSQTHSSSVPTSLSIRSLERVCSVLI 173
KR Q + S +L E C+ L+
Sbjct: 491 DSNKRVQEAACSAFATLE----EEACTELV 516
>pdb|2OT8|A Chain A, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|2OT8|B Chain B, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|4FDD|A Chain A, Crystal Structure Of Kap Beta2-Py-Nls
pdb|4H1K|A Chain A, Crystal Structure Of Human Kap-Beta2 Bound To The Nls Of
Saccharomyces Cerevisiae Nab2
Length = 852
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 59/150 (39%), Gaps = 14/150 (9%)
Query: 33 DSCVRKCSVFCMVALYKVTR---------ILFPLIIAEEHPINLVAIKMLTKVIEQNGKG 83
D +RKCS + L V R +L L+ E + I +L + E +G
Sbjct: 334 DWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQG 393
Query: 84 PVELFLPNIMPALLQAYENQDSCVRKCSVFCMVALYKEFGESVLSPYINKLSGAKLKLLQ 143
+ +LP ++P L+Q ++ + VR + + + Y+ L LK +
Sbjct: 394 MIP-YLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRIL 452
Query: 144 LYIKRSQTHSSSVPTSLSIRSLERVCSVLI 173
KR Q + S +L E C+ L+
Sbjct: 453 DSNKRVQEAACSAFATLE----EEACTELV 478
>pdb|2H4M|A Chain A, Karyopherin Beta2TRANSPORTIN-M9nls
pdb|2H4M|B Chain B, Karyopherin Beta2TRANSPORTIN-M9nls
Length = 865
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 59/150 (39%), Gaps = 14/150 (9%)
Query: 33 DSCVRKCSVFCMVALYKVTR---------ILFPLIIAEEHPINLVAIKMLTKVIEQNGKG 83
D +RKCS + L V R +L L+ E + I +L + E +G
Sbjct: 347 DWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQG 406
Query: 84 PVELFLPNIMPALLQAYENQDSCVRKCSVFCMVALYKEFGESVLSPYINKLSGAKLKLLQ 143
+ +LP ++P L+Q ++ + VR + + + Y+ L LK +
Sbjct: 407 MIP-YLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRIL 465
Query: 144 LYIKRSQTHSSSVPTSLSIRSLERVCSVLI 173
KR Q + S +L E C+ L+
Sbjct: 466 DSNKRVQEAACSAFATLE----EEACTELV 491
>pdb|2QMR|A Chain A, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|B Chain B, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|C Chain C, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|D Chain D, Karyopherin Beta2TRANSPORTIN
pdb|2Z5J|A Chain A, Free Transportin 1
pdb|2Z5K|A Chain A, Complex Of Transportin 1 With Tap Nls
pdb|2Z5M|A Chain A, Complex Of Transportin 1 With Tap Nls, Crystal Form 2
pdb|2Z5N|A Chain A, Complex Of Transportin 1 With Hnrnp D Nls
pdb|2Z5O|A Chain A, Complex Of Transportin 1 With Jktbp Nls
Length = 890
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 59/150 (39%), Gaps = 14/150 (9%)
Query: 33 DSCVRKCSVFCMVALYKVTR---------ILFPLIIAEEHPINLVAIKMLTKVIEQNGKG 83
D +RKCS + L V R +L L+ E + I +L + E +G
Sbjct: 372 DWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQG 431
Query: 84 PVELFLPNIMPALLQAYENQDSCVRKCSVFCMVALYKEFGESVLSPYINKLSGAKLKLLQ 143
+ +LP ++P L+Q ++ + VR + + + Y+ L LK +
Sbjct: 432 MIP-YLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRIL 490
Query: 144 LYIKRSQTHSSSVPTSLSIRSLERVCSVLI 173
KR Q + S +L E C+ L+
Sbjct: 491 DSNKRVQEAACSAFATLE----EEACTELV 516
>pdb|1KYO|G Chain G, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|R Chain R, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|3CX5|G Chain G, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core
Interface For Electron Transfer.
pdb|3CX5|R Chain R, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core
Interface For Electron Transfer.
pdb|3CXH|G Chain G, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome
C Bound And Definition Of A Minimal Core Interface For
Electron Transfer.
pdb|3CXH|R Chain R, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome
C Bound And Definition Of A Minimal Core Interface For
Electron Transfer
Length = 126
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 35 CVRKCSVFCMVALYKVTRILFPLIIAEEHPINLVAIKML 73
CV + F +A YK + F +IAEE+PI A++ L
Sbjct: 24 CVPVANQFINLAGYKKLGLKFDDLIAEENPIMQTALRRL 62
>pdb|1EZV|F Chain F, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KB9|G Chain G, Yeast Cytochrome Bc1 Complex
pdb|1P84|G Chain G, Hdbt Inhibited Yeast Cytochrome Bc1 Complex
Length = 125
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 35 CVRKCSVFCMVALYKVTRILFPLIIAEEHPINLVAIKML 73
CV + F +A YK + F +IAEE+PI A++ L
Sbjct: 23 CVPVANQFINLAGYKKLGLKFDDLIAEENPIMQTALRRL 61
>pdb|2IBZ|F Chain F, Yeast Cytochrome Bc1 Complex With Stigmatellin
Length = 127
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 35 CVRKCSVFCMVALYKVTRILFPLIIAEEHPINLVAIKML 73
CV + F +A YK + F +IAEE+PI A++ L
Sbjct: 25 CVPVANQFINLAGYKKLGLKFDDLIAEENPIMQTALRRL 63
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
0.323 0.137 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,612,820
Number of Sequences: 62578
Number of extensions: 163943
Number of successful extensions: 293
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 12
length of query: 176
length of database: 14,973,337
effective HSP length: 92
effective length of query: 84
effective length of database: 9,216,161
effective search space: 774157524
effective search space used: 774157524
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)