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= 038192
(764 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 141 bits (356), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 137/251 (54%), Gaps = 25/251 (9%)
Query: 31 RKDLPIVMMEQEIMEAVNDNSAVIICGETGCGKTTQVPQF-LFEAGFGSNRCSSRSGRIG 89
R++LP+ E ++ +N ++ GETG GKTTQ+PQF LF+ + ++
Sbjct: 90 RRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFD-----EMPHLENTQVA 144
Query: 90 VTQPRRVAVLATAKRVAFELGLHLGKEVGFQVRHDKKIGDSCSIKFMTDGILLRELK--- 146
TQPRRVA ++ A+RVA E+ + LG+EVG+ +R + K + +K+MTDG+LLRE
Sbjct: 145 CTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH 204
Query: 147 --------ALYEKQQQLLRS----GQCIEPKDRVFPLKLILMSATLRVEDFISGGRLFRN 194
L E ++ L + G + R LK+I+MSATL E F R F +
Sbjct: 205 DLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKF---QRYFND 261
Query: 195 PPIIEVPTRQFPVTVHFSKRTEIVDYIGQAYKKVMSIHKRLPQGGILVFVTGQREVEYLC 254
P++ VP R +PV ++++ + DY+ A + V+ IH G IL+F+TG+ E+E
Sbjct: 262 APLLAVPGRTYPVELYYTPEFQ-RDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAV 320
Query: 255 SKLRKASKQLL 265
K+ QL+
Sbjct: 321 RKISLEGDQLV 331
Score = 120 bits (302), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 98/200 (49%), Gaps = 5/200 (2%)
Query: 430 KRAGVGALCVLPLYAMLPAAAQLRVFEDVKEGE-----RLVVVSTNVAETSLTIPGIKYV 484
+ G G L V PLY LP Q R+FE E R VV+STN+AETSLTI GI YV
Sbjct: 332 REEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYV 391
Query: 485 VDTGREKVKKYNSANGIESYEIQWISKXXXXXXXXXXXXXXXXHCYRLYSSAVFNNILPD 544
VD G K K YN +ES + ISK C+RLY+ F L +
Sbjct: 392 VDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIE 451
Query: 545 FSCAEISKVPVDGVVLLMKSMNIDKVSNFPFPTPPEVTALVEAERCLKALEALDSNGRLT 604
S EI + + VL +K + ID + +F F PP ++ A L L LD G LT
Sbjct: 452 QSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLACLDDEGNLT 511
Query: 605 ALGKAMAHYPMSPRHSRMLL 624
LG+ + +P+ P + ML+
Sbjct: 512 PLGRLASQFPLDPMLAVMLI 531
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 141 bits (356), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 137/251 (54%), Gaps = 25/251 (9%)
Query: 31 RKDLPIVMMEQEIMEAVNDNSAVIICGETGCGKTTQVPQF-LFEAGFGSNRCSSRSGRIG 89
R++LP+ E ++ +N ++ GETG GKTTQ+PQF LF+ + ++
Sbjct: 90 RRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFD-----EMPHLENTQVA 144
Query: 90 VTQPRRVAVLATAKRVAFELGLHLGKEVGFQVRHDKKIGDSCSIKFMTDGILLRELK--- 146
TQPRRVA ++ A+RVA E+ + LG+EVG+ +R + K + +K+MTDG+LLRE
Sbjct: 145 CTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH 204
Query: 147 --------ALYEKQQQLLRS----GQCIEPKDRVFPLKLILMSATLRVEDFISGGRLFRN 194
L E ++ L + G + R LK+I+MSATL E F R F +
Sbjct: 205 DLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKF---QRYFND 261
Query: 195 PPIIEVPTRQFPVTVHFSKRTEIVDYIGQAYKKVMSIHKRLPQGGILVFVTGQREVEYLC 254
P++ VP R +PV ++++ + DY+ A + V+ IH G IL+F+TG+ E+E
Sbjct: 262 APLLAVPGRTYPVELYYTPEFQ-RDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAV 320
Query: 255 SKLRKASKQLL 265
K+ QL+
Sbjct: 321 RKISLEGDQLV 331
Score = 120 bits (302), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 98/200 (49%), Gaps = 5/200 (2%)
Query: 430 KRAGVGALCVLPLYAMLPAAAQLRVFEDVKEGE-----RLVVVSTNVAETSLTIPGIKYV 484
+ G G L V PLY LP Q R+FE E R VV+STN+AETSLTI GI YV
Sbjct: 332 REEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYV 391
Query: 485 VDTGREKVKKYNSANGIESYEIQWISKXXXXXXXXXXXXXXXXHCYRLYSSAVFNNILPD 544
VD G K K YN +ES + ISK C+RLY+ F L +
Sbjct: 392 VDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIE 451
Query: 545 FSCAEISKVPVDGVVLLMKSMNIDKVSNFPFPTPPEVTALVEAERCLKALEALDSNGRLT 604
S EI + + VL +K + ID + +F F PP ++ A L L LD G LT
Sbjct: 452 QSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLACLDDEGNLT 511
Query: 605 ALGKAMAHYPMSPRHSRMLL 624
LG+ + +P+ P + ML+
Sbjct: 512 PLGRLASQFPLDPMLAVMLI 531
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 71/186 (38%), Positives = 102/186 (54%), Gaps = 23/186 (12%)
Query: 31 RKDLPIVMMEQEIMEAVNDNSAVIICGETGCGKTTQVPQFLFEAGFGSNRCSSRSGRIGV 90
R+ LP+ E EI+EA++ NS VII G TGCGKTTQVPQF+ + ++R + I V
Sbjct: 57 RELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAA--ECNIVV 114
Query: 91 TQPRRVAVLATAKRVAFELGLHLGKEVGFQVRHDKKIGD-SCSIKFMTDGILLRELKALY 149
TQPRR++ ++ A+RVAFE G GK G+ VR + + SI F T G+LLR+L+A
Sbjct: 115 TQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHASIXFCTVGVLLRKLEAGI 174
Query: 150 EKQQQLLRSGQCIEPKD--------------RVFP-LKLILMSATLRVEDFISGGRLFRN 194
++ I +D + +P ++++L SAT+ F F N
Sbjct: 175 RGISHVIVDE--IHERDINTDFLLVVLRDVVQAYPEVRIVLXSATIDTSXFC---EYFFN 229
Query: 195 PPIIEV 200
PIIEV
Sbjct: 230 CPIIEV 235
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 36.6 bits (83), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 24/42 (57%)
Query: 583 ALVEAERCLKALEALDSNGRLTALGKAMAHYPMSPRHSRMLL 624
L+ A L L ALD G LT LG+ MA +P+ P +ML+
Sbjct: 19 TLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLI 60
>pdb|1ZLG|A Chain A, Solution Structure Of The Extracellular Matrix Protein
Anosmin-1
Length = 680
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 42 EIMEAVNDNSAVIICGETGCGKTTQVPQFLFEA 74
E E N+ S V C GCG T QVP+ L++
Sbjct: 126 ESCEVDNECSGVKKCCSNGCGHTCQVPKTLYKG 158
>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 = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 8/52 (15%)
Query: 453 RVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVDTGREKVKKYNSANGIESY 504
+ E +EG++ V+V+T+VA L P I++V++ Y+ IE+Y
Sbjct: 95 KAIEAFREGKKDVLVATDVASKGLDFPAIQHVIN--------YDMPEEIENY 138
>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 = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 442 LYAMLPAAAQLRVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVD 486
L+ L + R+ +D +EG V+++TNV + IP + VV+
Sbjct: 66 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVN 110
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 442 LYAMLPAAAQLRVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVD 486
L+ L + R+ +D +EG V+++TNV + IP + VV+
Sbjct: 67 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVN 111
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 442 LYAMLPAAAQLRVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVD 486
L+ L + R+ +D +EG V+++TNV + IP + VV+
Sbjct: 273 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVN 317
>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 = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 442 LYAMLPAAAQLRVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVD 486
L+ L + R+ +D +EG V+++TNV + IP + VV+
Sbjct: 273 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVN 317
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 442 LYAMLPAAAQLRVFEDVKEGERLVVVSTNVAETSLTIPGIKYVVD 486
L+ L + R+ +D +EG V+++TNV + IP + VV+
Sbjct: 65 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVN 109
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
0.316 0.132 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,714,448
Number of Sequences: 62578
Number of extensions: 815986
Number of successful extensions: 2309
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2278
Number of HSP's gapped (non-prelim): 36
length of query: 764
length of database: 14,973,337
effective HSP length: 106
effective length of query: 658
effective length of database: 8,340,069
effective search space: 5487765402
effective search space used: 5487765402
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: 55 (25.8 bits)