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= 048509
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 10/74 (13%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGH 93
K FR +G ++ LVCSD +T G+D++ + +TY+HR G R G G
Sbjct: 299 KVFHEFR-QGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGL 357
Query: 94 CFTLLPKDEDKLLY 107
L+ ++ LY
Sbjct: 358 AINLINWNDRFNLY 371
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 66/162 (40%), Gaps = 23/162 (14%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFAS-SVANSPKTLKAFRGKGHMQVLVC 59
+ +N S C S + L + LG F + A + + FR G + LVC
Sbjct: 42 LQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRN-GLCRNLVC 100
Query: 60 SDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQ 110
+D T G+D++ + +TY+HR G R G G L+ D+ F
Sbjct: 101 TDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDD-----RFN 155
Query: 111 VKRFKKLLQQADHDSCPVHSIPSSSIESLRPI-YKSEYVESQ 151
+K ++ L + IPS+ +SL Y SE VE +
Sbjct: 156 LKSIEEQL------GTEIKPIPSNIDKSLYVAEYHSEPVEDE 191
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 79 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 137
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 138 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 179
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 79 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 137
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 138 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 179
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 79 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 137
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 138 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 179
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 334 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 393 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 434
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 334 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 393 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 434
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERA---------AYIKTYIHRAGPRARAGQNGHCF 95
+K F+ K +LVC+D GMD + + YIHR G AR+G+ G
Sbjct: 385 VKRFK-KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 443
Query: 96 TLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESL 139
+ KDE L ++ +++ K ++ P I S +E++
Sbjct: 444 LFICKDE--LPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAV 485
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 9/65 (13%)
Query: 51 KGHMQVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKD 101
+G + VLV +D G+D+ +++ TY+HR G ARAG+ G +L+
Sbjct: 78 EGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAH 137
Query: 102 EDKLL 106
+ LL
Sbjct: 138 DHLLL 142
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 16/88 (18%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMD---VERAAY------IKTYIHRAGPRARAGQNGH 93
+ + AFR +G +L+ +D + G+D VE+ ++TYIHR G R G+ G
Sbjct: 257 RNIDAFR-EGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGE 315
Query: 94 CFTLLPKDEDKLLYMFQVKRFKKLLQQA 121
T + + Y + K KK+ Q+A
Sbjct: 316 AITFILNE-----YWLE-KEVKKVSQKA 337
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 253 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 307
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 308 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 367
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 274 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 328
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 329 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 388
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 329
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 329
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 10/79 (12%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAY---------IKTYIHRAGPRARAGQNGH 93
+ L+ F+ G M+VL+ + + G+D++ + I Y+HR G R G NG
Sbjct: 341 QALRDFK-NGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGR 399
Query: 94 CFTLLPKDEDKLLYMFQVK 112
+ ++D+ + VK
Sbjct: 400 ATSFFDPEKDRAIAADLVK 418
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 238 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 292
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+++ + C +K K +L +R E +S + P+ +K FR G +
Sbjct: 238 LTITQAVIFCNTKRKVDWLTEKMR----EANFTVSSMHGDMPQKERESIMKEFRS-GASR 292
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
VL+ +D G+DV + + I + YIHR G R G+ G + D+ ++L
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 51/107 (47%), Gaps = 11/107 (10%)
Query: 10 CESKLKPIYLIPLLRNLGGEKFIVFAS-SVANSPKTLKAFRGKGHMQVLVCSDAMTSGMD 68
C++K L LR++G + + S + K ++ F+ K +++L+ +D + G+D
Sbjct: 245 CKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQK-KIRILIATDVXSRGID 303
Query: 69 VERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDEDKLL 106
V + ++Y HR G RAG+ G +++ + E K L
Sbjct: 304 VNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKL 350
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 9/65 (13%)
Query: 51 KGHMQVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKD 101
+G + LV +D G+D+E + + ++Y+HR G RAG G + +
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAF 142
Query: 102 EDKLL 106
E + L
Sbjct: 143 EKRFL 147
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 42/95 (44%), Gaps = 14/95 (14%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDV---------ERAAYIKTYIHRAGPRARAGQNGH 93
K ++AFR +G VLV +D + G+D + I+ Y+HR G +G G
Sbjct: 95 KAIEAFR-EGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGI 153
Query: 94 CFTLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPV 128
T + K D+ + M K LL +A PV
Sbjct: 154 ATTFINKACDESVLM----DLKALLLEAKQKVPPV 184
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 16/81 (19%)
Query: 37 SVANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHR 81
+V ++ FR G +VL+ ++ G+DV++ + +TY+HR
Sbjct: 69 TVEQRASIIQRFR-DGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHR 127
Query: 82 AGPRARAGQNGHCFTLLPKDE 102
G R G+ G F ++ DE
Sbjct: 128 IGRTGRFGKKGLAFNMIEVDE 148
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 38 VANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRA 82
V ++ FR +G +VLV ++ G+DVE+ + + +TY+HR
Sbjct: 302 VEQRAAVIERFR-EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 360
Query: 83 GPRARAGQNGHCFTLLP-KDEDKLLYMFQVKRFKKLLQQADHDS 125
G R G+ G ++ K +L Q + F K +++ D D
Sbjct: 361 GRTGRFGKRGLAVNMVDSKHSMNILNRIQ-EHFNKKIERLDTDD 403
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 38 VANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRA 82
V ++ FR +G +VLV ++ G+DVE+ + + +TY+HR
Sbjct: 339 VEQRAAVIERFR-EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 397
Query: 83 GPRARAGQNGHCFTLLP-KDEDKLLYMFQVKRFKKLLQQADHDS 125
G R G+ G ++ K +L Q + F K +++ D D
Sbjct: 398 GRTGRFGKRGLAVNMVDSKHSMNILNRIQ-EHFNKKIERLDTDD 440
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 38 VANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRA 82
V ++ FR +G +VLV ++ G+DVE+ + + +TY+HR
Sbjct: 318 VEQRAAVIERFR-EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 376
Query: 83 GPRARAGQNGHCFTLLP-KDEDKLLYMFQVKRFKKLLQQADHDS 125
G R G+ G ++ K +L Q + F K +++ D D
Sbjct: 377 GRTGRFGKRGLAVNMVDSKHSMNILNRIQ-EHFNKKIERLDTDD 419
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 18/98 (18%)
Query: 44 TLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRARA 88
++ FR +G +VLV ++ G+DVE+ + + +TY+HR G R
Sbjct: 375 VIERFR-EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRF 433
Query: 89 GQNGHCFTLLP-KDEDKLLYMFQVKRFKKLLQQADHDS 125
G+ G ++ K +L Q + F K +++ D D
Sbjct: 434 GKRGLAVNMVDSKHSMNILNRIQ-EHFNKKIERLDTDD 470
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 55 QVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDED 103
++LV ++ GMD+ER TY+HR R G G T + + D
Sbjct: 83 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 140
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 55 QVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDED 103
++LV ++ GMD+ER TY+HR R G G T + + D
Sbjct: 301 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 358
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 30.8 bits (68), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 55 QVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDED 103
++LV ++ GMD+ER TY+HR R G G T + + D
Sbjct: 302 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 359
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 55 QVLVCSDAMTSGMDVERAAYI---------KTYIHRAGPRARAGQNGHCFTLLPKDED 103
++LV ++ GMD+ER TY+HR R G G T + + D
Sbjct: 302 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 359
>pdb|2HA9|A Chain A, Crystal Structure Of Protein Sp0239 From Streptococcus
Pneumoniae
pdb|2HA9|B Chain B, Crystal Structure Of Protein Sp0239 From Streptococcus
Pneumoniae
Length = 446
Score = 30.4 bits (67), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 17/98 (17%)
Query: 23 LRNLGGEKFIVFASSVANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYIKTYIHRA 82
L + G K +VFA++V ++P AF G G V++ + SG V + RA
Sbjct: 175 LSDXGVAKLVVFANAVEDNPFXAGAFHGVGEADVII--NVGVSGPGV---------VKRA 223
Query: 83 GPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQ 120
+ R G F ++ + K F++ R +L+ Q
Sbjct: 224 LEKVR----GQSFDVVAETVKK--TAFKITRIGQLVGQ 255
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 30.0 bits (66), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 26/122 (21%), Positives = 50/122 (40%), Gaps = 26/122 (21%)
Query: 39 ANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAG 83
A + +FR G +VLV ++ + G+DV + + +TY+HR G
Sbjct: 394 AQRDAIMDSFR-VGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIG 452
Query: 84 PRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQADHDSCPVHSIPSSSIESLRPIY 143
R G+ G + DK K ++++ ++ P+ +P+ E L +
Sbjct: 453 RTGRFGRVGVSINFV---HDK-------KSWEEMNAIQEYFQRPITRVPTDDYEELEKVV 502
Query: 144 KS 145
K+
Sbjct: 503 KN 504
>pdb|3KT1|A Chain A, Crystal Structure Of Tpa1 From Saccharomyces Cerevisiae, A
Component Of The Messenger Ribonucleoprotein Complex
Length = 633
Score = 30.0 bits (66), Expect = 0.71, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 98 LPKDEDKLLYMFQVKRFKKLLQ---QADHDSCPVHSIPSSSIESLRP-----IYKSEYVE 149
PKDE +L +VK F+K+L+ A D+ P S+ S +S++ Y S+Y+
Sbjct: 265 FPKDERNILSFHEVKHFEKMLKGDAGAKTDNTPKESMTSVISDSVKLSEAEFTYLSQYIS 324
Query: 150 SQ 151
+
Sbjct: 325 PE 326
>pdb|3KT7|A Chain A, Crystal Structure Of Tpa1 From Saccharomyces Cerevisiae, A
Component Of The Messenger Ribonucleoprotein Complex
Length = 633
Score = 29.6 bits (65), Expect = 0.74, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 98 LPKDEDKLLYMFQVKRFKKLLQ---QADHDSCPVHSIPSSSIESLRP-----IYKSEYVE 149
PKDE +L +VK F+K+L+ A D+ P S+ S +S++ Y S+Y+
Sbjct: 265 FPKDERNILSFHEVKHFEKMLKGDAGAKTDNTPKESMTSVISDSVKLSEAEFTYLSQYIS 324
Query: 150 SQ 151
+
Sbjct: 325 PE 326
>pdb|3MGU|A Chain A, Saccharomyces Cerevisiae Tpa1
Length = 644
Score = 29.6 bits (65), Expect = 0.81, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 98 LPKDEDKLLYMFQVKRFKKLLQ---QADHDSCPVHSIPSSSIESLRP-----IYKSEYVE 149
PKDE +L +VK F+K+L+ A D+ P S+ S +S++ Y S+Y+
Sbjct: 284 FPKDERNILSFHEVKHFEKMLKGDAGAKTDNTPKESMTSVISDSVKLSEAEFTYLSQYIS 343
Query: 150 SQ 151
+
Sbjct: 344 PE 345
>pdb|2VGI|A Chain A, Human Erythrocyte Pyruvate Kinase: R486w Mutant
pdb|2VGI|B Chain B, Human Erythrocyte Pyruvate Kinase: R486w Mutant
pdb|2VGI|C Chain C, Human Erythrocyte Pyruvate Kinase: R486w Mutant
pdb|2VGI|D Chain D, Human Erythrocyte Pyruvate Kinase: R486w Mutant
Length = 528
Score = 28.9 bits (63), Expect = 1.5, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 233 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 285
>pdb|2VGG|A Chain A, Human Erythrocyte Pyruvate Kinase: R479h Mutant
pdb|2VGG|B Chain B, Human Erythrocyte Pyruvate Kinase: R479h Mutant
pdb|2VGG|C Chain C, Human Erythrocyte Pyruvate Kinase: R479h Mutant
pdb|2VGG|D Chain D, Human Erythrocyte Pyruvate Kinase: R479h Mutant
Length = 528
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 233 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 285
>pdb|2VGB|A Chain A, Human Erythrocyte Pyruvate Kinase
pdb|2VGB|B Chain B, Human Erythrocyte Pyruvate Kinase
pdb|2VGB|C Chain C, Human Erythrocyte Pyruvate Kinase
pdb|2VGB|D Chain D, Human Erythrocyte Pyruvate Kinase
Length = 528
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 233 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 285
>pdb|2VGF|A Chain A, Human Erythrocyte Pyruvate Kinase: T384m Mutant
pdb|2VGF|B Chain B, Human Erythrocyte Pyruvate Kinase: T384m Mutant
pdb|2VGF|C Chain C, Human Erythrocyte Pyruvate Kinase: T384m Mutant
pdb|2VGF|D Chain D, Human Erythrocyte Pyruvate Kinase: T384m Mutant
Length = 528
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 233 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 285
>pdb|4IP7|A Chain A, Structure Of The S12d Variant Of Human Liver Pyruvate
Kinase In Complex With Citrate And Fbp.
pdb|4IP7|B Chain B, Structure Of The S12d Variant Of Human Liver Pyruvate
Kinase In Complex With Citrate And Fbp.
pdb|4IP7|C Chain C, Structure Of The S12d Variant Of Human Liver Pyruvate
Kinase In Complex With Citrate And Fbp.
pdb|4IP7|D Chain D, Structure Of The S12d Variant Of Human Liver Pyruvate
Kinase In Complex With Citrate And Fbp
Length = 543
Score = 28.5 bits (62), Expect = 1.7, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 248 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 300
>pdb|4IMA|A Chain A, The Structure Of C436m-hlpyk In Complex With
Citrate/mn/atp/fru-1,6-bp
pdb|4IMA|B Chain B, The Structure Of C436m-hlpyk In Complex With
Citrate/mn/atp/fru-1,6-bp
pdb|4IMA|C Chain C, The Structure Of C436m-hlpyk In Complex With
Citrate/mn/atp/fru-1,6-bp
pdb|4IMA|D Chain D, The Structure Of C436m-hlpyk In Complex With
Citrate/mn/atp/fru-1,6-bp
Length = 543
Score = 28.5 bits (62), Expect = 1.7, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 66 GMDVERAAYIKTYIHRAGPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQQAD 122
G+D+ A++++ A RA G GH ++ K E+ VKRF ++L+ +D
Sbjct: 248 GVDIVFASFVRKASDVAAVRAALGPEGHGIKIISKIENHE----GVKRFDEILEVSD 300
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRAR 87
+ + FR +G +VL+ ++ + G+D+ + + TYIHR G R
Sbjct: 284 RLIDDFR-EGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
Query: 88 AGQNGHCFTLL 98
G+ G + +
Sbjct: 343 FGRKGVAISFV 353
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRAR 87
+ + FR +G +VL+ ++ + G+D+ + + TYIHR G R
Sbjct: 284 RLIDDFR-EGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
Query: 88 AGQNGHCFTLL 98
G+ G + +
Sbjct: 343 FGRKGVAISFV 353
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRAR 87
+ + FR +G +VL+ ++ + G+D+ + + TYIHR G R
Sbjct: 76 RLIDDFR-EGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 134
Query: 88 AGQNGHCFTLL 98
G+ G + +
Sbjct: 135 FGRKGVAISFV 145
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRAR 87
+ + FR +G +VL+ ++ + G+D+ + + TYIHR G R
Sbjct: 77 RLIDDFR-EGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGR 135
Query: 88 AGQNGHCFTLL 98
G+ G + +
Sbjct: 136 FGRKGVAISFV 146
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 16/69 (23%)
Query: 45 LKAFRGKGHMQVLVCSDAMTSGMDVERAAYI---------------KTYIHRAGPRARAG 89
+ FR +G +VL+ ++ + G+D+ + + TYIHR G R G
Sbjct: 80 IDDFR-EGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
Query: 90 QNGHCFTLL 98
+ G + +
Sbjct: 139 RKGVAISFV 147
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYIKTYIHRAGPRARAGQN 91
+ L AFR +G ++VLV +D G+D+ + + Y R RA A Q+
Sbjct: 72 RVLGAFR-QGEVRVLVATDVAARGLDIPQVDLVVHY--RLPDRAEAYQH 117
>pdb|3KU4|A Chain A, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KU4|B Chain B, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KU4|C Chain C, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KU4|D Chain D, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KUK|A Chain A, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KUK|B Chain B, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KVR|A Chain A, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KVR|B Chain B, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KVY|A Chain A, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
pdb|3KVY|B Chain B, Trapping Of An Oxocarbenium Ion Intermediate In Up
Crystals
Length = 309
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%)
Query: 34 FASSVANSPKTLKAFRGKGHMQVLVCSDAMTSGMDVERAAY 74
F + V N+ TL + G+G + +CS D RAAY
Sbjct: 199 FPTVVGNTMCTLDFYEGQGRLDGALCSYTEKDKQDYLRAAY 239
>pdb|3KT4|A Chain A, Crystal Structure Of Tpa1 From Saccharomyces Cerevisiae, A
Component Of The Messenger Ribonucleoprotein Complex
Length = 633
Score = 27.3 bits (59), Expect = 4.0, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 8/62 (12%)
Query: 98 LPKDEDKLLYMFQVKRFKKLLQ---QADHDSCPVHSIPSSSIESLRP-----IYKSEYVE 149
PKDE +L +VK F+K L+ A D+ P S S +S++ Y S+Y+
Sbjct: 265 FPKDERNILSFHEVKHFEKXLKGDAGAKTDNTPKESXTSVISDSVKLSEAEFTYLSQYIS 324
Query: 150 SQ 151
+
Sbjct: 325 PE 326
>pdb|1YQE|A Chain A, Crystal Structure Of Conserved Protein Of Unknown
Function Af0625
Length = 282
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 8/19 (42%), Positives = 17/19 (89%)
Query: 51 KGHMQVLVCSDAMTSGMDV 69
+GHM+++VCS++ T+G ++
Sbjct: 2 QGHMKLVVCSESDTAGQNI 20
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+SV + C ++ K L LRN +KF V ++ ++ P+ +K FR G +
Sbjct: 28 ISVTQAVIFCNTRRKVEELTTKLRN---DKFTV-SAIYSDLPQQERDTIMKEFRS-GSSR 82
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRA 82
+L+ +D + G+DV++ + + + YIHR
Sbjct: 83 ILISTDLLARGIDVQQVSLVINYDLPANKENYIHRI 118
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 1 MSVNLSPQICESKLKPIYLIPLLRNLGGEKFIVFASSVANSPK-----TLKAFRGKGHMQ 55
+SV + C ++ K L LRN +KF V ++ ++ P+ +K FR G +
Sbjct: 258 ISVTQAVIFCNTRRKVEELTTKLRN---DKFTV-SAIYSDLPQQERDTIMKEFRS-GSSR 312
Query: 56 VLVCSDAMTSGMDVERAAYI---------KTYIHRA 82
+L+ +D + G+DV++ + + + YIHR
Sbjct: 313 ILISTDLLARGIDVQQVSLVINYDLPANKENYIHRI 348
>pdb|4PGA|A Chain A, Glutaminase-asparaginase From Pseudomonas 7a
pdb|4PGA|B Chain B, Glutaminase-asparaginase From Pseudomonas 7a
Length = 337
Score = 26.6 bits (57), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 11/111 (9%)
Query: 15 KPIYLIPLLR---NLGGEKFIVFASSVANSPKTLKAFRGKGHMQVLVC-SDAMTSGMDVE 70
KPI ++ +R + + + ++VA + K RGKG VLV +D + SG DV
Sbjct: 118 KPIVVVGSMRPGTAMSADGMLNLYNAVAVASN--KDSRGKG---VLVTMNDEIQSGRDVS 172
Query: 71 RAAYIKTYIHRA--GPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQ 119
++ IKT ++ GP + + LP + F +K+ L Q
Sbjct: 173 KSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQ 223
>pdb|1DJO|A Chain A, Crystal Structure Of Pseudomonas 7a
Glutaminase-Asparaginase With The Inhibitor Donv
Covalently Bound In The Active Site
pdb|1DJO|B Chain B, Crystal Structure Of Pseudomonas 7a
Glutaminase-Asparaginase With The Inhibitor Donv
Covalently Bound In The Active Site
pdb|1DJP|A Chain A, Crystal Structure Of Pseudomonas 7a
Glutaminase-Asparaginase With The Inhibitor Don
Covalently Bound In The Active Site
pdb|1DJP|B Chain B, Crystal Structure Of Pseudomonas 7a
Glutaminase-Asparaginase With The Inhibitor Don
Covalently Bound In The Active Site
Length = 330
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 11/111 (9%)
Query: 15 KPIYLIPLLR---NLGGEKFIVFASSVANSPKTLKAFRGKGHMQVLVC-SDAMTSGMDVE 70
KPI ++ +R + + + ++VA + K RGKG VLV +D + SG DV
Sbjct: 111 KPIVVVGSMRPGTAMSADGMLNLYNAVAVASN--KDSRGKG---VLVTMNDEIQSGRDVS 165
Query: 71 RAAYIKTYIHRA--GPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQ 119
++ IKT ++ GP + + LP + F +K+ L Q
Sbjct: 166 KSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQ 216
>pdb|3PGA|1 Chain 1, Structural Characterization Of Pseudomonas 7a Glutaminase-
Asparaginase
pdb|3PGA|2 Chain 2, Structural Characterization Of Pseudomonas 7a Glutaminase-
Asparaginase
pdb|3PGA|3 Chain 3, Structural Characterization Of Pseudomonas 7a Glutaminase-
Asparaginase
pdb|3PGA|4 Chain 4, Structural Characterization Of Pseudomonas 7a Glutaminase-
Asparaginase
Length = 337
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 11/111 (9%)
Query: 15 KPIYLIPLLR---NLGGEKFIVFASSVANSPKTLKAFRGKGHMQVLVC-SDAMTSGMDVE 70
KPI ++ +R + + + ++VA + K RGKG VLV +D + SG DV
Sbjct: 118 KPIVVVGSMRPGTAMSADGMLNLYNAVAVASN--KDSRGKG---VLVTMNDEIQSGRDVS 172
Query: 71 RAAYIKTYIHRA--GPRARAGQNGHCFTLLPKDEDKLLYMFQVKRFKKLLQ 119
++ IKT ++ GP + + LP + F +K+ L Q
Sbjct: 173 KSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQ 223
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 43 KTLKAFRGKGHMQVLVCSDAMTSGMDVERAAYIKTY 78
+ + AFR +G ++VLV +D G+D+ + + Y
Sbjct: 69 RVMGAFR-QGEVRVLVATDVAARGLDIPQVDLVVHY 103
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
0.321 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,508,017
Number of Sequences: 62578
Number of extensions: 166379
Number of successful extensions: 468
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 43
Number of HSP's that attempted gapping in prelim test: 428
Number of HSP's gapped (non-prelim): 60
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)