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= 048669
(568 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 = 129 bits (323), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 111/400 (27%), Positives = 185/400 (46%), Gaps = 57/400 (14%)
Query: 195 KCVDVTVFDYFVNHRRINLCFSGDFPCIDVGKPRKPTYIPIELCSLLSLQRYTKALTVFQ 254
+ V+ TV YF + ++ L + PC+ VG+ +K TY+P+E+C++++ QR K LT Q
Sbjct: 304 QTVECTVAQYFKDRHKLVLRYP-HLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQ 362
Query: 255 RSALVEKSQQKPQEKMKIITDDSMEHYAQVMRSNKNDSEPMLRSCGISINSRFAQVEGRI 314
S ++ + + D E +++MRS +++P +R GI + V GR+
Sbjct: 363 TSTMIRATARS--------APDRQEEISKLMRSASFNTDPYVREFGIMVKDEMTDVTGRV 414
Query: 315 LSAPRI-----------------------FVPAAKIDHWAVANFSGGCDIRSLCRDLIRF 351
L P I F +I WA+A F+ + L F
Sbjct: 415 LQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEV--HLKSF 472
Query: 352 GE-MKRISTSPPLNVFEENPQF-RRAPAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDS 409
E +++IS + + + P F + A V+ MF +K + ++ +LP + +
Sbjct: 473 TEQLRKISRDAGMPI-QGQPCFCKYAQGADSVEPMFRHLKNTYAGLQ-LVVVILPGK--T 528
Query: 410 DLYGSWKRKTLSEFGIFNQCLAPTKVNE---QYLMNVLLKINAKLGGLNSLLAIEQSKNL 466
+Y KR + G+ QC+ V Q L N+ LKIN KLGG+N++L +
Sbjct: 529 PVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILL---PQGR 585
Query: 467 PLVSKVPTIIFGMDVSHGSPGHXXXXXXXXXXXXRNWPILSRYRASVRSQSTKLEMIDSL 526
P V + P I G DV+H G + +RY A+VR Q + E+I
Sbjct: 586 PPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEII--- 641
Query: 527 FKPLPNKDDAGIVRELLVDFYKSSGQTKPSQIIIFRSTLT 566
+D A +VRELL+ FYKS+ + KP++II +R ++
Sbjct: 642 ------QDLAAMVRELLIQFYKST-RFKPTRIIFYRDGVS 674
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 128 bits (322), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 111/400 (27%), Positives = 184/400 (46%), Gaps = 57/400 (14%)
Query: 195 KCVDVTVFDYFVNHRRINLCFSGDFPCIDVGKPRKPTYIPIELCSLLSLQRYTKALTVFQ 254
+ V+ TV YF + ++ L + PC+ VG+ +K TY+P+E+C++++ QR K LT Q
Sbjct: 302 QTVECTVAQYFKDRHKLVLRYP-HLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQ 360
Query: 255 RSALVEKSQQKPQEKMKIITDDSMEHYAQVMRSNKNDSEPMLRSCGISINSRFAQVEGRI 314
S ++ + + D E +++MRS +++P +R GI + V GR+
Sbjct: 361 TSTMIRATARS--------APDRQEEISKLMRSADFNTDPYVREFGIMVKDEMTDVTGRV 412
Query: 315 LSAPRI-----------------------FVPAAKIDHWAVANFSGGCDIRSLCRDLIRF 351
L P I F +I WA+A F+ + L F
Sbjct: 413 LQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEV--HLKSF 470
Query: 352 GE-MKRISTSPPLNVFEENPQF-RRAPAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDS 409
E +++IS + + + P F + A V+ MF +K + ++ +LP + +
Sbjct: 471 TEQLRKISRDAGMPI-QGQPCFCKYAQGADSVEPMFRHLKNTYAGLQ-LVVVILPGK--T 526
Query: 410 DLYGSWKRKTLSEFGIFNQCLAPTKVNE---QYLMNVLLKINAKLGGLNSLLAIEQSKNL 466
+Y KR + G+ QC+ V Q L N+ LKIN KLGG+N++L +
Sbjct: 527 PVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILL---PQGR 583
Query: 467 PLVSKVPTIIFGMDVSHGSPGHXXXXXXXXXXXXRNWPILSRYRASVRSQSTKLEMIDSL 526
P V + P I G DV+H G + +RY A+VR Q + E+I L
Sbjct: 584 PPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQEIIQDL 642
Query: 527 FKPLPNKDDAGIVRELLVDFYKSSGQTKPSQIIIFRSTLT 566
A +VRELL+ FYKS+ + KP++II +R ++
Sbjct: 643 ---------AAMVRELLIQFYKST-RFKPTRIIFYRDGVS 672
>pdb|3VNB|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Domains
Length = 155
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 76/154 (49%), Gaps = 24/154 (15%)
Query: 321 FVPAAKIDHWAVANFSGGCD---IRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRAPA 377
+ +++W NFS R+ C++L + + ++ NP+ P
Sbjct: 5 MINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAF---------NPEPVLPPV 55
Query: 378 PVRVDRMFEQMKQKFE---------KRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQ 428
R +++ + +K ++ K L+ +LPD+K+SDLYG KR +E GI +Q
Sbjct: 56 SARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDKKNSDLYGDLKRICETELGIVSQ 115
Query: 429 CLAPT---KVNEQYLMNVLLKINAKLGGLNSLLA 459
C K+++QY+ NV LKIN K+GG N++L
Sbjct: 116 CCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 149
>pdb|3VNA|A Chain A, Structural Insights Into Small Rna Sorting And Mrna
Binding By Arabidopsis Ago Mid Domains
Length = 154
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 25/154 (16%)
Query: 321 FVPAAKIDHWAVANFSGGCD---IRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRAPA 377
+ +++W NFS R+ C++L +M +S NP+ P
Sbjct: 5 MINGGTVNNWICINFSRQVQDNLARTFCQEL---AQMCYVSG------MAFNPEPVLPPV 55
Query: 378 PVRVDRMFEQMKQKFE---------KRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQ 428
R +++ + +K ++ K L+ +LPD S LYG KR +E GI +Q
Sbjct: 56 SARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGS-LYGDLKRICETELGIVSQ 114
Query: 429 CLAPT---KVNEQYLMNVLLKINAKLGGLNSLLA 459
C K+++QY+ NV LKIN K+GG N++L
Sbjct: 115 CCLTKHVFKMSKQYMANVALKINVKVGGRNTVLV 148
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 46/145 (31%), Positives = 65/145 (44%), Gaps = 17/145 (11%)
Query: 321 FVPAAKIDHWAVANFSGGCD---IRSLCRDLIRFGEMKRISTSP-PLNVFEENPQFRRAP 376
V AK+ W +FS D + C+ LI K + P P F P
Sbjct: 5 MVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEHIEE 64
Query: 377 APVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLAP---T 433
A + + + ++ L+ +LPD S YG KR +E GI +QC P
Sbjct: 65 ALLDIHKRAPGLQ--------LLIVILPDVTGS--YGKIKRICETELGIVSQCCQPRQVN 114
Query: 434 KVNEQYLMNVLLKINAKLGGLNSLL 458
K+N+QY+ NV LKIN K GG N++L
Sbjct: 115 KLNKQYMENVALKINVKTGGRNTVL 139
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 72/153 (47%), Gaps = 25/153 (16%)
Query: 321 FVPAAKIDHWAVANFSGGCD---IRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRAPA 377
+ +++W NFS R+ C++L + + ++ NP+ P
Sbjct: 5 MINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAF---------NPEPVLPPV 55
Query: 378 PVRVDRMFEQMKQKFE---------KRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQ 428
R +++ + +K ++ K L+ +LPD S LYG KR +E GI +Q
Sbjct: 56 SARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGS-LYGDLKRICETELGIVSQ 114
Query: 429 CLAPT---KVNEQYLMNVLLKINAKLGGLNSLL 458
C K+++QY+ NV LKIN K+GG N++L
Sbjct: 115 CCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 147
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 72/175 (41%), Gaps = 20/175 (11%)
Query: 317 APRIFVPAAKIDHWAVANFSGGCDIRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRA- 375
A ++ P KI+ W G + + + F E T P+N P+F
Sbjct: 4 AVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLN-RTGIPIN-----PRFSPGM 57
Query: 376 --PAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLAP- 432
P F ++K+ F++ LLP RKD +Y KR FG+ C
Sbjct: 58 SMSVPGSEKEFFAKVKELMSSHQ-FVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAE 115
Query: 433 ----TKVNEQYLMNVLLKINAKLGGLNSLLAIEQSKNLPLVSKVPTIIFGMDVSH 483
TK Y NV LK+N K GG N + +PL++K T++ G DV+H
Sbjct: 116 KFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IPLLAKGKTMVVGYDVTH 166
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 72/175 (41%), Gaps = 20/175 (11%)
Query: 317 APRIFVPAAKIDHWAVANFSGGCDIRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRA- 375
A ++ P KI+ W G + + + F E T P+N P+F
Sbjct: 4 AVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLN-RTGIPIN-----PRFSPGM 57
Query: 376 --PAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLAP- 432
P F ++K+ F++ LLP RKD +Y KR FG+ C
Sbjct: 58 SMSVPGSEKEFFAKVKELMSSHQ-FVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAE 115
Query: 433 ----TKVNEQYLMNVLLKINAKLGGLNSLLAIEQSKNLPLVSKVPTIIFGMDVSH 483
TK Y NV LK+N K GG N + +PL++K T++ G DV+H
Sbjct: 116 KFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IPLLAKGKTMVVGYDVTH 166
>pdb|1R4K|A Chain A, Solution Structure Of The Drosophila Argonaute 1 Paz
Domain
Length = 169
Score = 52.8 bits (125), Expect = 6e-07, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 195 KCVDVTVFDYFVNHRRINLCFSGDFPCIDVGKPRKPTYIPIELCSLLSLQRYTKALTVFQ 254
+ V+ TV YF++ R+ L + PC+ VG+ K TY+P+E+C++++ QR K LT Q
Sbjct: 82 QTVECTVAKYFLDKYRMKLRYP-HLPCLQVGQEHKHTYLPLEVCNIVAGQRCIKKLTDMQ 140
Query: 255 RSALVEKSQQKPQEKMKIITD 275
S +++ + + ++ + I +
Sbjct: 141 TSTMIKATARSAPDREREINN 161
>pdb|4G0X|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago1 Mid Domain
Length = 147
Score = 52.4 bits (124), Expect = 6e-07, Method: Composition-based stats.
Identities = 42/152 (27%), Positives = 69/152 (45%), Gaps = 25/152 (16%)
Query: 322 VPAAKIDHWAVANFSGGCD---IRSLCRDLIRFGEMKRISTSPPLNVFEENPQFRRAPAP 378
+ +++W NFS R+ C++L + + + NP+ P
Sbjct: 6 INGGTVNNWICINFSRQVQDNLARTFCQELAQXCYVSGXAF---------NPEPVLPPVS 56
Query: 379 VRVDRMFEQMKQKFE---------KRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQC 429
R +++ + +K ++ K L+ +LPD S LYG KR +E GI +QC
Sbjct: 57 ARPEQVEKVLKTRYHDATSKLSQGKEIDLLIVILPDNNGS-LYGDLKRICETELGIVSQC 115
Query: 430 LAPT---KVNEQYLMNVLLKINAKLGGLNSLL 458
K ++QY NV LKIN K+GG N++L
Sbjct: 116 CLTKHVFKXSKQYXANVALKINVKVGGRNTVL 147
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 57/118 (48%), Gaps = 9/118 (7%)
Query: 370 PQFRRAPAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQC 429
P F +P + + + E + ++L +L DS +Y K T +FG N C
Sbjct: 660 PTFETSPGEISLLNLLENIPSN-----TYILYVLRRGNDSAVYDRLKYITDLKFGALNSC 714
Query: 430 LAPTKVNE---QYLMNVLLKINAKLGGLNSLLAIEQSKNL-PLVSKVPTIIFGMDVSH 483
+ + QY NV++K+N KL G N L+IE +K L S +P ++ G DV+H
Sbjct: 715 VVWDNFKKNSIQYNSNVVMKMNLKLLGSNHSLSIENNKLLIDKESNLPILVLGSDVTH 772
>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 = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 195 KCVDVTVFDYFVNHRRINLCFSGDFPCIDVGKPRKPTYIPIELCSLLSLQRYTKALTVFQ 254
+ V+ TV YF + L + PC+ VG+ +K TY+P+E+C++++ QR K LT Q
Sbjct: 80 QTVECTVAQYFKQKYNLQLKYP-HLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQ 138
Query: 255 RSALVEKSQQ 264
S +++ + +
Sbjct: 139 TSTMIKATAR 148
>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 = 45.4 bits (106), Expect = 7e-05, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 195 KCVDVTVFDYFVNHRRINLCFSGDFPCIDVGKPRKPTYIPIELCSLLSLQRYTKALTVFQ 254
+ V+ TV YF + L + PC+ VG+ +K TY+P+E+C++++ QR K LT Q
Sbjct: 80 QTVECTVAQYFKQKYNLQLKYP-HLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQ 138
Query: 255 RSALVEKSQQ 264
S ++ + +
Sbjct: 139 TSTXIKATAR 148
>pdb|2XDY|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid Domain
Length = 145
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 41/147 (27%), Positives = 57/147 (38%), Gaps = 16/147 (10%)
Query: 317 APRIFVPAAKIDHWAVANFSGGCDIRSLCRDLIRFGEMKRISTSPPLNVFEENPQFR--- 373
A ++ P KI+ W G + + + F E T P+N P+F
Sbjct: 4 AVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLN-RTGIPIN-----PRFSPGM 57
Query: 374 RAPAPVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQC---- 429
P F ++K+ F++ LLP RKD +Y KR FG+ C
Sbjct: 58 SMSVPGSEKEFFAKVKELMSSHQ-FVVVLLP-RKDVAIYNMVKRAADITFGVHTVCCVAE 115
Query: 430 -LAPTKVNEQYLMNVLLKINAKLGGLN 455
TK Y NV LK+N K GG N
Sbjct: 116 KFLSTKGQLGYFANVGLKVNLKFGGTN 142
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 36/64 (56%), Gaps = 5/64 (7%)
Query: 395 RPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLA---PTKVNEQYLMNVLLKINAKL 451
RP +LC + RKD D Y + K ++ G+ QC TK +QY N+ LK+NAK+
Sbjct: 86 RPTLVLCAMS-RKD-DGYKTLKWIAETKLGLVTQCFLTGPATKGGDQYRANLALKMNAKV 143
Query: 452 GGLN 455
GG N
Sbjct: 144 GGSN 147
>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 = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 40/142 (28%), Positives = 66/142 (46%), Gaps = 15/142 (10%)
Query: 321 FVPAAKIDHWAVANFSGGCDIRSLCRD--LIRFGE-MKRISTSPPLNVFEENPQF-RRAP 376
F +I WA+A F+ + C + L F E +++IS + + + P F + A
Sbjct: 5 FHTGIEIKVWAIACFAP----QRQCTEVHLKSFTEQLRKISRDAGMPI-QGQPCFCKYAQ 59
Query: 377 APVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLAPTKVN 436
V+ MF +K + ++ +LP + + +Y KR + G+ QC+ V
Sbjct: 60 GADSVEPMFRHLKNTYAGLQ-LVVVILPGK--TPVYAEVKRVGDTVLGMATQCVQMKNVQ 116
Query: 437 E---QYLMNVLLKINAKLGGLN 455
Q L N+ LKIN KLGG+N
Sbjct: 117 RTTPQTLSNLCLKINVKLGGVN 138
>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 = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 38/141 (26%), Positives = 59/141 (41%), Gaps = 13/141 (9%)
Query: 321 FVPAAKIDHWAVANFSGGCDIRSLCRD--LIRFGEMKRISTSPPLNVFEENPQF-RRAPA 377
F +I WA+A F+ + C + L F E R + + P F + A
Sbjct: 5 FHTGIEIKVWAIACFAP----QRQCTEVHLKSFTEQLRKISRDAGXPIQGQPCFCKYAQG 60
Query: 378 PVRVDRMFEQMKQKFEKRPCFLLCLLPDRKDSDLYGSWKRKTLSEFGIFNQCLAPTKVNE 437
V+ F +K + ++ +LP + + +Y KR + G QC+ V
Sbjct: 61 ADSVEPXFRHLKNTYAGLQ-LVVVILPGK--TPVYAEVKRVGDTVLGXATQCVQXKNVQR 117
Query: 438 ---QYLMNVLLKINAKLGGLN 455
Q L N+ LKIN KLGG+N
Sbjct: 118 TTPQTLSNLCLKINVKLGGVN 138
>pdb|2Y8J|A Chain A, Cbm62 In Complex With Arabinobiose
pdb|2Y8J|B Chain B, Cbm62 In Complex With Arabinobiose
pdb|2YFU|A Chain A, Cbm62 From Clostridium Thermocellum Xyl5a
pdb|2YFZ|A Chain A, Cbm62 From Clostridium Thermocellum Xyl5a
pdb|2YG0|A Chain A, Cbm62 From Clostridium Thermocellum Xyl5a
pdb|2YB7|A Chain A, Cbm62 In Complex With 6-Alpha-D-Galactosyl-Mannotriose
pdb|2YB7|B Chain B, Cbm62 In Complex With 6-Alpha-D-Galactosyl-Mannotriose
Length = 155
Score = 33.9 bits (76), Expect = 0.26, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 25 SLFTISALPHKKMEFLVLLDNPSSYRTTSNDSPDGHGSN 63
+LFTI++LP V +DNP+ +R SPDG N
Sbjct: 92 TLFTITSLPGSGTLTSVDVDNPTGFRYVRYLSPDGSNGN 130
>pdb|1TEV|A Chain A, Crystal Structure Of The Human UmpCMP KINASE IN OPEN
Conformation
Length = 196
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 24/37 (64%)
Query: 358 STSPPLNVFEENPQFRRAPAPVRVDRMFEQMKQKFEK 394
ST P ++++EE + ++ A VD +F+++ Q F+K
Sbjct: 158 STKPIIDLYEEMGKVKKIDASKSVDEVFDEVVQIFDK 194
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 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,248,150
Number of Sequences: 62578
Number of extensions: 589438
Number of successful extensions: 1091
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1055
Number of HSP's gapped (non-prelim): 21
length of query: 568
length of database: 14,973,337
effective HSP length: 104
effective length of query: 464
effective length of database: 8,465,225
effective search space: 3927864400
effective search space used: 3927864400
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: 54 (25.4 bits)