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= 039048
(482 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 249 bits (636), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 137/245 (55%), Positives = 158/245 (64%), Gaps = 19/245 (7%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPLVTD 297
+KRV +T LG+ +QC Q + R Q N+ LKINVK+GG N +L+ Q R P V
Sbjct: 534 VKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILLP--QGRPP-VFQ 590
Query: 298 RPTIIFGADVTHPQPGEDSSPSIAAVVASMDWPEVTKYRGLVSAQAHHEEIIQDLYKSTQ 357
+P I GADVTHP G+ PSIAAVV SMD +Y V Q H +EIIQDL
Sbjct: 591 QPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL----- 644
Query: 358 DPQRGLVHGGMIRELLIAFRRSTNFKPHRIIFYRDGVSEGQFSQVLLHEMNAIRQACASL 417
M+RELLI F +ST FKP RIIFYRDGVSEGQF QVL HE+ AIR+AC L
Sbjct: 645 --------AAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKL 696
Query: 418 EEGYAPPVTFVVVQKRHHTRLFPADHNRRDLTDRSGNILPGTVVDTHICHPTEFDFYLNS 477
E+ Y P +TF+VVQKRHHTRLF D N R +SGNI GT VDT I HPTEFDFYL S
Sbjct: 697 EKDYQPGITFIVVQKRHHTRLFCTDKNER--VGKSGNIPAGTTVDTKITHPTEFDFYLCS 754
Query: 478 HAGIQ 482
HAGIQ
Sbjct: 755 HAGIQ 759
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 87/243 (35%), Positives = 131/243 (53%), Gaps = 20/243 (8%)
Query: 1 VSITPEVTSKKINRQIISQLINLYRLTNLGGRIPAYDGMKSIYTAGPLPFESKEFIIKLX 60
+ I PE +++NR+I+ ++ ++ G R P +DG K++YTA PLP + +++
Sbjct: 61 LDIKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVT 120
Query: 61 XXXXXXXXXXXXXKERQFRVVIRLASKPDLYTLQQFLRRRHFEVPYEVIQVLDVVLRAAP 120
K+R F+V I+ S L L L R VP+E IQ LDVV+R P
Sbjct: 121 LPGEG--------KDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 172
Query: 121 SEKHTVVGRSFFSTDLGPMGQLGDGVEYWRGYFQSLRPTQMGLSLNIDVSARSFYEPILA 180
S ++T VGRSFF+ G LG G E W G+ QS+RP+ + LNIDVSA +FY+
Sbjct: 173 SMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPV 232
Query: 181 TEFVQYYCRDLS--------RPLSDQVRLKVKKALKGIKVVLTHM-EYNKSYKITGISSQ 231
EFV C L +PL+D R+K K +KG+KV +TH + + Y++ ++ +
Sbjct: 233 IEFV---CEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRR 289
Query: 232 PMS 234
P S
Sbjct: 290 PAS 292
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 249 bits (636), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 137/245 (55%), Positives = 158/245 (64%), Gaps = 19/245 (7%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPLVTD 297
+KRV +T LG+ +QC Q + R Q N+ LKINVK+GG N +L+ Q R P V
Sbjct: 532 VKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILLP--QGRPP-VFQ 588
Query: 298 RPTIIFGADVTHPQPGEDSSPSIAAVVASMDWPEVTKYRGLVSAQAHHEEIIQDLYKSTQ 357
+P I GADVTHP G+ PSIAAVV SMD +Y V Q H +EIIQDL
Sbjct: 589 QPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL----- 642
Query: 358 DPQRGLVHGGMIRELLIAFRRSTNFKPHRIIFYRDGVSEGQFSQVLLHEMNAIRQACASL 417
M+RELLI F +ST FKP RIIFYRDGVSEGQF QVL HE+ AIR+AC L
Sbjct: 643 --------AAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKL 694
Query: 418 EEGYAPPVTFVVVQKRHHTRLFPADHNRRDLTDRSGNILPGTVVDTHICHPTEFDFYLNS 477
E+ Y P +TF+VVQKRHHTRLF D N R +SGNI GT VDT I HPTEFDFYL S
Sbjct: 695 EKDYQPGITFIVVQKRHHTRLFCTDKNER--VGKSGNIPAGTTVDTKITHPTEFDFYLCS 752
Query: 478 HAGIQ 482
HAGIQ
Sbjct: 753 HAGIQ 757
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 87/243 (35%), Positives = 131/243 (53%), Gaps = 20/243 (8%)
Query: 1 VSITPEVTSKKINRQIISQLINLYRLTNLGGRIPAYDGMKSIYTAGPLPFESKEFIIKLX 60
+ I PE +++NR+I+ ++ ++ G R P +DG K++YTA PLP + +++
Sbjct: 59 LDIKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVT 118
Query: 61 XXXXXXXXXXXXXKERQFRVVIRLASKPDLYTLQQFLRRRHFEVPYEVIQVLDVVLRAAP 120
K+R F+V I+ S L L L R VP+E IQ LDVV+R P
Sbjct: 119 LPGEG--------KDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 170
Query: 121 SEKHTVVGRSFFSTDLGPMGQLGDGVEYWRGYFQSLRPTQMGLSLNIDVSARSFYEPILA 180
S ++T VGRSFF+ G LG G E W G+ QS+RP+ + LNIDVSA +FY+
Sbjct: 171 SMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPV 230
Query: 181 TEFVQYYCRDLS--------RPLSDQVRLKVKKALKGIKVVLTHM-EYNKSYKITGISSQ 231
EFV C L +PL+D R+K K +KG+KV +TH + + Y++ ++ +
Sbjct: 231 IEFV---CEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRR 287
Query: 232 PMS 234
P S
Sbjct: 288 PAS 290
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 118 bits (295), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 78/254 (30%), Positives = 127/254 (50%), Gaps = 24/254 (9%)
Query: 237 IIKRVCETELGIVSQCCQPRQ--ASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPL 294
++KR + G+ + CC + +++ + YF NV LK+N+K GG N ++ IPL
Sbjct: 96 MVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTN----HNIKTPIPL 151
Query: 295 VTDRPTIIFGADVTHP---QPGED--SSPSIAAVVASMDWPEVTKYRGLVSAQAHHEEII 349
+ T++ G DVTHP G+ S+PSI +V+++D + ++ +V H +E +
Sbjct: 152 LAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQWPAMVWNNPHGQESM 210
Query: 350 QDLYKSTQDPQRGLVHGGMIRELLIAFRRSTNFKPHRIIFYRDGVSEGQFSQVLLHEMNA 409
+ + + EL + + P I+ +RDGVSEGQF V+ E+
Sbjct: 211 TEQFTDKFKTRL---------ELWRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPL 261
Query: 410 IRQACASL-EEGYAPPVTFVVVQKRHHTRLFPADHNRRDLTDRSGNILPGTVVDTHICHP 468
+R AC + G P +T +V KRH TR FP D +S GTVVD + +
Sbjct: 262 VRAACKLVYPAGKLPRITLIVSVKRHQTRFFPTDPKHIHFKSKSPK--EGTVVDRGVTNV 319
Query: 469 TEFDFYLNSHAGIQ 482
+DF+L +HA +Q
Sbjct: 320 RYWDFFLQAHASLQ 333
>pdb|4F1N|A Chain A, Crystal Structure Of Kluyveromyces Polysporus Argonaute
With A Guide Rna
pdb|4F1N|B Chain B, Crystal Structure Of Kluyveromyces Polysporus Argonaute
With A Guide Rna
Length = 1046
Score = 108 bits (271), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 79/260 (30%), Positives = 134/260 (51%), Gaps = 31/260 (11%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL-VDAVQKRIPLVT 296
+K + + + G ++ C + ++QY NV +K+N+K+ G N L ++ + I +
Sbjct: 700 LKYITDLKFGALNSCVVWDNFKKNSIQYNSNVVMKMNLKLLGSNHSLSIENNKLLIDKES 759
Query: 297 DRPTIIFGADVTHPQPGEDSSPSIAAVVASMDWPEVTKYRGLVSAQ-AHHEEIIQDLYKS 355
+ P ++ G+DVTH P +D + SIA++V S D + T++ G Q EEII ++
Sbjct: 760 NLPILVLGSDVTH-YPEKDQN-SIASLVGSYD-DKFTQFPGDYMLQDGPGEEIITNV--- 813
Query: 356 TQDPQRGLVHGGMIRELLIAFRRSTNFK-PHRIIFYRDGVSEGQFSQVLLHEMNAIRQAC 414
G ++ L +++ N K P +I+++RDGVS QFSQV+ E+ +I+++
Sbjct: 814 ----------GSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQFSQVVKIEVKSIKESV 863
Query: 415 ----ASLEEG--YAPPVTFVVVQKRHHTRLFPADHNRRD------LTDRSGNILPGTVVD 462
L G Y PPVT + KR+ R P N ++ GN++PGTVVD
Sbjct: 864 RKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEVAVQSMGNVMPGTVVD 923
Query: 463 THICHPTEFDFYLNSHAGIQ 482
I FDF++ SH ++
Sbjct: 924 RGITSVAHFDFFIQSHQALK 943
>pdb|4G0O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago5 Mid Domain
pdb|4G0O|B Chain B, Crystal Structure Of Arabidopsis Thaliana Ago5 Mid Domain
Length = 139
Score = 89.0 bits (219), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 40/47 (85%), Positives = 43/47 (91%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL 284
IKR+CETELGIVSQCCQPRQ ++LN QY ENVALKINVK GGRNTVL
Sbjct: 93 IKRICETELGIVSQCCQPRQVNKLNKQYMENVALKINVKTGGRNTVL 139
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 65/226 (28%), Positives = 110/226 (48%), Gaps = 30/226 (13%)
Query: 237 IIKRVCETELGIVSQCCQPRQ--ASRLNMQYFENVALKINVKVGGRNTVLVDAVQKRIPL 294
++KR + G+ + CC + +++ + YF NV LK+N+K GG N ++ IPL
Sbjct: 96 MVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTN----HNIKTPIPL 151
Query: 295 VTDRPTIIFGADVTHP---QPGED--SSPSIAAVVASMDWPEVTKYRGLVSAQAHHEEII 349
+ T++ G DVTHP G+ S+PSI +V+++D + ++ +V H +E +
Sbjct: 152 LAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQWPAMVWNNPHGQESM 210
Query: 350 QDLYKSTQDPQRGLVHGGMIRELLIAFRRSTNFKPHRIIFYRDGVSEGQFSQVLLHEMNA 409
+ + + EL + + P I+ +RDGVSEGQF V+ E+
Sbjct: 211 TEQFTDKFKTRL---------ELWRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPL 261
Query: 410 IRQACASL-EEGYAPPVTFVVVQK----RHHTRL----FPADHNRR 446
+R AC + G P +T +V K H+T L F AD+ +
Sbjct: 262 VRAACKLVYPAGKLPRITLIVSVKGSGSAHYTVLVDEIFRADYGNK 307
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 34/48 (70%), Positives = 40/48 (83%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVLV 285
+KR+CETELGIVSQCC + +++ QY NVALKINVKVGGRNTVLV
Sbjct: 102 LKRICETELGIVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 149
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 34/48 (70%), Positives = 40/48 (83%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVLV 285
+KR+CETELGIVSQCC + +++ QY NVALKINVKVGGRNTVLV
Sbjct: 101 LKRICETELGIVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 148
>pdb|4G0P|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Ump
pdb|4G0Q|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Cmp
pdb|4G0Y|A Chain A, Crystal Structure Of Arabidopsis Ago1 In Complex With Amp
pdb|4G0Z|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
In Complex With Gmp
Length = 147
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/47 (70%), Positives = 39/47 (82%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL 284
+KR+CETELGIVSQCC + +++ QY NVALKINVKVGGRNTVL
Sbjct: 101 LKRICETELGIVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 73.6 bits (179), Expect = 3e-13, Method: Composition-based stats.
Identities = 33/47 (70%), Positives = 38/47 (80%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL 284
+KR+CETELGIVSQCC + + + QY NVALKINVKVGGRNTVL
Sbjct: 101 LKRICETELGIVSQCCLTKHVFKXSKQYXANVALKINVKVGGRNTVL 147
>pdb|3LUK|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|C Chain C, Crystal Structure Of Mid Domain From Hago2
Length = 138
Score = 45.1 bits (105), Expect = 8e-05, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 27/44 (61%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRN 281
+KRV +T LG +QC Q + R Q N+ LKINVK+GG N
Sbjct: 95 VKRVGDTVLGXATQCVQXKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|4G0M|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
pdb|4G0M|B Chain B, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
Length = 150
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/47 (46%), Positives = 31/47 (65%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRNTVL 284
+K + ET+LG+V+QC A++ QY N+ALK+N KVGG N L
Sbjct: 104 LKWIAETKLGLVTQCFLTGPATKGGDQYRANLALKMNAKVGGSNVEL 150
>pdb|3LUC|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|C Chain C, Crystal Structure Of Mid Domain From Hago2
pdb|3LUD|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUG|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUH|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUJ|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3QX8|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX9|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
Length = 138
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 28/44 (63%)
Query: 238 IKRVCETELGIVSQCCQPRQASRLNMQYFENVALKINVKVGGRN 281
+KRV +T LG+ +QC Q + R Q N+ LKINVK+GG N
Sbjct: 95 VKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVN 138
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 2/47 (4%)
Query: 237 IIKRVCETELGIVSQCCQPRQ--ASRLNMQYFENVALKINVKVGGRN 281
++KR + G+ + CC + +++ + YF NV LK+N+K GG N
Sbjct: 96 MVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTN 142
>pdb|1SI2|A Chain A, Crystal Structure Of The Paz Domain Of Human Eif2c1 In
Complex With A 9-Mer Sirna-Like Duplex Of
Deoxynucleotide Overhang
Length = 149
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 179 LATEFVQYYCRDLS--------RPLSDQVRLKVKKALKGIKVVLTHM-EYNKSYKITGIS 229
+A +++ C L +PL+D R++ K +KG+KV +TH + + Y++ ++
Sbjct: 4 MAQPVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVT 63
Query: 230 SQPMS 234
+P S
Sbjct: 64 RRPAS 68
>pdb|1SI3|A Chain A, Crystal Structure Of The Paz Domain Of Human Eif2c1 In
Complex With A 9-Mer Sirna-Like Duplex
Length = 149
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 193 RPLSDQVRLKVKKALKGIKVVLTHM-EYNKSYKITGISSQPMS 234
+PL+D R++ K +KG+KV +TH + + Y++ ++ +P S
Sbjct: 26 KPLTDSQRVRFTKEIKGLKVEVTHCGQXKRKYRVCNVTRRPAS 68
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 39/69 (56%), Gaps = 12/69 (17%)
Query: 173 SFYEPILATEFVQYYC-----RDLS---RPLSDQVRLKVKKALKGIKVVLTHM-EYNKSY 223
+FY+ A + + C RD++ +PL+D R+K K +KG+K+ +TH + + Y
Sbjct: 3 AFYK---AQPVIDFMCEVLDIRDINEQRKPLTDSQRVKFTKEIKGLKIEITHCGQMRRKY 59
Query: 224 KITGISSQP 232
++ ++ +P
Sbjct: 60 RVCNVTRRP 68
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
0.322 0.138 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,267,794
Number of Sequences: 62578
Number of extensions: 506085
Number of successful extensions: 1167
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1126
Number of HSP's gapped (non-prelim): 19
length of query: 482
length of database: 14,973,337
effective HSP length: 103
effective length of query: 379
effective length of database: 8,527,803
effective search space: 3232037337
effective search space used: 3232037337
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: 53 (25.0 bits)