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= 023022
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WW1|A Chain A, Crystal Structure Of Trnase Z From Thermotoga Maritima
pdb|1WW1|B Chain B, Crystal Structure Of Trnase Z From Thermotoga Maritima
pdb|2E7Y|A Chain A, High Resolution Structure Of T. Maritima Trnase Z
pdb|2E7Y|B Chain B, High Resolution Structure Of T. Maritima Trnase Z
Length = 280
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 71/255 (27%), Positives = 116/255 (45%), Gaps = 27/255 (10%)
Query: 24 GLSIAGHETCIIFPSLDLAFDIGRCPSRALSQN-----FLFISHAHMDHIGGLPMYVATR 78
G S A T I + + FD G S L ++F++H H+DHI GL V R
Sbjct: 5 GFSKALFSTWIYYSPERILFDAGEGVSTTLGSKVYAFKYVFLTHGHVDHIAGLWGVVNIR 64
Query: 79 --GLY-RMKPPTIIVPSCIKEDVEQLFEVHRRMDHS-ELNHTLVGLDVGEEFCMRK---- 130
G+ R KP + P + VE+ E +R + + + L GE +R
Sbjct: 65 NNGMGDREKPLDVFYPEGNRA-VEEYTEFIKRANPDLRFSFNVHPLKEGERVFLRNAGGF 123
Query: 131 DLFVKAFKTYHVIQ--SQGYVVYSVKQKLKQEYLGLPGDEIKKL-KSSGTE-ITYTVTTP 186
+V+ F+T HV S GY ++ V++KLK+E+ GL EI +L K G + +T
Sbjct: 124 KRYVQPFRTKHVSSEVSFGYHIFEVRRKLKKEFQGLDSKEISRLVKEKGRDFVTEEYHKK 183
Query: 187 EVAFTGDTMSDFIVDEANIDVLRARILVMESTYVDDSTTVEQARDYGHTHLSEIVEYAEK 246
+ +GD+++ +D I +L+ E T++D R H + E++E +
Sbjct: 184 VLTISGDSLA---LDPEEIR--GTELLIHECTFLD----ARDRRYKNHAAIDEVMESVKA 234
Query: 247 FENKAILLIHFSARH 261
K ++L H S R+
Sbjct: 235 AGVKKVILYHISTRY 249
>pdb|4GCW|A Chain A, Crystal Structure Of Rnase Z In Complex With Precursor
Trna(Thr)
Length = 320
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 66/251 (26%), Positives = 110/251 (43%), Gaps = 36/251 (14%)
Query: 58 LFISHAHMDHIGGLPMYVATRGLYRMKPP-TIIVPSCIKEDVEQLFEVHRRMDHSELNHT 116
+FI+H H DH+ GLP + +R + T+ P IK +E V + + L +
Sbjct: 59 IFITHMHGDHVYGLPGLLGSRSFQGGEDELTVYGPKGIKAFIETSLAVTK----THLTYP 114
Query: 117 LVGLDVGEEFCMRKDLF-VKAFKTYHVIQSQGYVVY------SVKQKLKQEYLGLPGDEI 169
L ++ E D F V A H +++ GY V S+K + +E PG
Sbjct: 115 LAIQEIEEGIVFEDDQFIVTAVSVIHGVEAFGYRVQEKDVPGSLKADVLKEMNIPPGPVY 174
Query: 170 KKLKSSGTEITYT----------VTTPE----VAFTGDTMSDFIVDEANIDVLRARILVM 215
+K+K G +T + P+ V F+GDT + E D ++V
Sbjct: 175 QKIK-KGETVTLEDGRIINGNDFLEPPKKGRSVVFSGDTRVSDKLKELARD---CDVMVH 230
Query: 216 ESTYVDDSTTVEQARDYGHTHLSEIVEYAEKFENKAILLIHFSARHKVD---EIRR-AVD 271
E+T+ + + A DY H+ + A++ K ++L H SAR++ D E+++ AVD
Sbjct: 231 EATFAKEDRKL--AYDYYHSTTEQAAVTAKEARAKQLILTHISARYQGDASLELQKEAVD 288
Query: 272 AVPAPLAGRVF 282
P +A F
Sbjct: 289 VFPNSVAAYDF 299
>pdb|1Y44|A Chain A, Crystal Structure Of Rnase Z
pdb|1Y44|B Chain B, Crystal Structure Of Rnase Z
Length = 320
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 66/251 (26%), Positives = 109/251 (43%), Gaps = 36/251 (14%)
Query: 58 LFISHAHMDHIGGLPMYVATRGLYRMKPP-TIIVPSCIKEDVEQLFEVHRRMDHSELNHT 116
+FI+H H DH+ GLP + +R + T+ P IK +E V + + L +
Sbjct: 59 IFITHXHGDHVYGLPGLLGSRSFQGGEDELTVYGPKGIKAFIETSLAVTK----THLTYP 114
Query: 117 LVGLDVGEEFCMRKDLF-VKAFKTYHVIQSQGYVVY------SVKQKLKQEYLGLPGDEI 169
L ++ E D F V A H +++ GY V S+K + +E PG
Sbjct: 115 LAIQEIEEGIVFEDDQFIVTAVSVIHGVEAFGYRVQEKDVPGSLKADVLKEXNIPPGPVY 174
Query: 170 KKLKSSGTEITYT----------VTTPE----VAFTGDTMSDFIVDEANIDVLRARILVM 215
+K+K G +T + P+ V F+GDT + E D + V
Sbjct: 175 QKIK-KGETVTLEDGRIINGNDFLEPPKKGRSVVFSGDTRVSDKLKELARD---CDVXVH 230
Query: 216 ESTYVDDSTTVEQARDYGHTHLSEIVEYAEKFENKAILLIHFSARHKVD---EIRR-AVD 271
E+T+ + + A DY H+ + A++ K ++L H SAR++ D E+++ AVD
Sbjct: 231 EATFAKEDRKL--AYDYYHSTTEQAAVTAKEARAKQLILTHISARYQGDASLELQKEAVD 288
Query: 272 AVPAPLAGRVF 282
P +A F
Sbjct: 289 VFPNSVAAYDF 299
>pdb|2FK6|A Chain A, Crystal Structure Of Rnase ZTRNA(THR) COMPLEX
Length = 320
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 65/251 (25%), Positives = 109/251 (43%), Gaps = 36/251 (14%)
Query: 58 LFISHAHMDHIGGLPMYVATRGLYRMKPP-TIIVPSCIKEDVEQLFEVHRRMDHSELNHT 116
+FI+H DH+ GLP + +R + T+ P IK +E V + + L +
Sbjct: 59 IFITHMAGDHVYGLPGLLGSRSFQGGEDELTVYGPKGIKAFIETSLAVTK----THLTYP 114
Query: 117 LVGLDVGEEFCMRKDLF-VKAFKTYHVIQSQGYVVY------SVKQKLKQEYLGLPGDEI 169
L ++ E D F V A H +++ GY V S+K + +E PG
Sbjct: 115 LAIQEIEEGIVFEDDQFIVTAVSVIHGVEAFGYRVQEKDVPGSLKADVLKEMNIPPGPVY 174
Query: 170 KKLKSSGTEITYT----------VTTPE----VAFTGDTMSDFIVDEANIDVLRARILVM 215
+K+K G +T + P+ V F+GDT + E D ++V
Sbjct: 175 QKIKK-GETVTLEDGRIINGNDFLEPPKKGRSVVFSGDTRVSDKLKELARD---CDVMVH 230
Query: 216 ESTYVDDSTTVEQARDYGHTHLSEIVEYAEKFENKAILLIHFSARHKVD---EIRR-AVD 271
E+T+ + + A DY H+ + A++ K ++L H SAR++ D E+++ AVD
Sbjct: 231 EATFAKEDRKL--AYDYYHSTTEQAAVTAKEARAKQLILTHISARYQGDASLELQKEAVD 288
Query: 272 AVPAPLAGRVF 282
P +A F
Sbjct: 289 VFPNSVAAYDF 299
>pdb|2CBN|A Chain A, Crystal Structure Of Zipd From Escherichia Coli
Length = 306
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 55/226 (24%), Positives = 97/226 (42%), Gaps = 32/226 (14%)
Query: 58 LFISHAHMDHIGGLPMYVATRGLYR-MKPPTIIVPSCIKEDVEQLFEVHRRMDHSELNHT 116
+FISH H DH+ GLP + +R + ++P TI P I+E VE R+ S ++
Sbjct: 61 IFISHLHGDHLFGLPGLLCSRSMSGIIQPLTIYGPQGIREFVETAL----RISGSWTDYP 116
Query: 117 LVGLDVGEEFCMRKDLF-VKAFKTYHVIQSQGYVV--YSVKQKLKQEYLGL----PGDEI 169
L +++G + L V A+ H ++ GY + + L + L PG
Sbjct: 117 LEIVEIGAGEILDDGLRKVTAYPLEHPLECYGYRIEEHDAPGALNAQALKAAGVPPGPLF 176
Query: 170 KKLKSSGT-------------EITYTVTTPEVAFTGDTMSDFIVDEANIDVLRA-RILVM 215
++LK+ T + V +A GDT +A +D+ + ++V
Sbjct: 177 QELKAGKTITLEDGRQINGADYLAAPVPGKALAIFGDTGP----CDAALDLAKGVDVMVH 232
Query: 216 ESTYVDDSTTVEQARDYGHTHLSEIVEYAEKFENKAILLIHFSARH 261
E+T D T +A GH+ + A + +++ H S+R+
Sbjct: 233 EATL--DITMEAKANSRGHSSTRQAATLAREAGVGKLIITHVSSRY 276
>pdb|3ZWF|A Chain A, Crystal Structure Of Human Trnase Z, Short Form (Elac1).
pdb|3ZWF|B Chain B, Crystal Structure Of Human Trnase Z, Short Form (Elac1)
Length = 368
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 69/268 (25%), Positives = 107/268 (39%), Gaps = 69/268 (25%)
Query: 58 LFISHAHMDHIGGLPMYVAT----RGLYRMKPPTII------------------------ 89
+FI+H H DH GLP + T G K P I
Sbjct: 56 IFITHLHGDHFFGLPGLLCTISLQSGSMVSKQPIEIYGPVGLRDFIWRTMELSHTELVFH 115
Query: 90 ------VPS---CIKEDVEQLFEVHR--RMDHSELNHTLVGLDVGEEFCMRKD---LFVK 135
VP+ C E++++ V+R E T++ LD E + D VK
Sbjct: 116 YVVHELVPTADQCPAEELKEFAHVNRADSPPKEEQGRTIL-LDSEENSYLLFDDEQFVVK 174
Query: 136 AFKTYHVIQSQGYVVYSVK-------QKLKQEYLGLP-GDEIKKLKS-------SGTEIT 180
AF+ +H I S G+ V K QKLK LG+P G KLK+ +G I+
Sbjct: 175 AFRLFHRIPSFGFSVVEKKRPGKLNAQKLKD--LGVPPGPAYGKLKNGISVVLENGVTIS 232
Query: 181 ------YTVTTPEVAFTGDTMSDFIVDEANIDVLRARILVMESTYVDDSTTVEQARDYGH 234
+ ++ GD S + D A +L+ E+T D +++A+++GH
Sbjct: 233 PQDVLKKPIVGRKICILGDC-SGVVGDGGVKLCFEADLLIHEATL--DDAQMDKAKEHGH 289
Query: 235 THLSEIVEYAEKFENKAILLIHFSARHK 262
+ +A+ K ++L HFS R+K
Sbjct: 290 STPQMAATFAKLCRAKRLVLTHFSQRYK 317
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 79/207 (38%), Gaps = 41/207 (19%)
Query: 58 LFISHAHMDHIGGLPM---YVATRGLYRMKPPTIIVPSCIKEDVEQLFE------VHRRM 108
+ I+HAH+DH G LP Y G PPT + +++D ++ + ++R
Sbjct: 252 IIITHAHLDHCGMLPYLFRYNLFDGPIYTTPPTRDLMVLLQKDFIEIQQSNGQDPLYRPR 311
Query: 109 DHSELNHTLVGLDVGEEFCMRKDLFVKAFKTYHVIQSQGYVVYSVKQKLKQEYLGLPGDE 168
D E+ + LD GE + D+ + H++ S V + L
Sbjct: 312 DIKEVIKHTITLDYGEVRDISPDIRLTLHNAGHILGS-AIVHLHIGNGLHN--------- 361
Query: 169 IKKLKSSGTEITYTVTTPEVAFTGD--TMSDFIVDEANIDVLRARILVMESTYVDDSTTV 226
+A TGD + +++ AN R LVMESTY + +
Sbjct: 362 -------------------IAITGDFKFIPTRLLEPANAKFPRLETLVMESTY-GGANDI 401
Query: 227 EQARDYGHTHLSEIVEYAEKFENKAIL 253
+ R+ L E++ K K ++
Sbjct: 402 QMPREEAEKRLIEVIHNTIKRGGKVLI 428
>pdb|3ZQ4|A Chain A, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|C Chain C, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|D Chain D, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|E Chain E, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
Length = 555
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 58 LFISHAHMDHIGGLP 72
LFI+H H DHIGG+P
Sbjct: 70 LFITHGHEDHIGGIP 84
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73
pdb|2I7V|A Chain A, Structure Of Human Cpsf-73
Length = 459
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 13/41 (31%)
Query: 56 NFLFISHAHMDHIGGLPMYV-------------ATRGLYRM 83
+ L ISH H+DH G LP ++ AT+ +YR
Sbjct: 65 DLLLISHFHLDHCGALPWFLQKTSFKGRTFMTHATKAIYRW 105
>pdb|1V06|A Chain A, Axh Domain Of The Transcription Factor Hbp1 From
M.Musculus
Length = 142
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 37/98 (37%), Gaps = 17/98 (17%)
Query: 2 ATKAKEEEKSGRGMQLQGYKVEGLSIAGHETCIIFPS--LDLAFDIGRCPSRALSQNFLF 59
A EE+ G +GY +GL + HE + F L L FD G ++ L
Sbjct: 37 AASCDNEEEIQMGTH-KGYGSDGLKLLSHEESVSFGESVLKLTFDPGT------VEDGLL 89
Query: 60 ISHAHMDHIGGLPMYVATRGLYRMKPPTIIV----PSC 93
+DH P YV +G P +V P C
Sbjct: 90 TVECKLDH----PFYVKNKGWSSFYPSLTVVQHGIPCC 123
>pdb|2CFU|A Chain A, Crystal Structure Of Sdsa1, An Alkylsulfatase From
Pseudomonas Aeruginosa, In Complex With
1-Decane-Sulfonic- Acid.
pdb|2CFZ|A Chain A, Crystal Structure Of Sdsa1, An Alkylsulfatase From
Pseudomonas Aeruginosa, In Complex With 1-Dodecanol
pdb|2CG2|A Chain A, Crystal Structure Of Sdsa1, An Alkylsulfatase From
Pseudomonas Aeruginosa, In Complex With Sulfate
Length = 658
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 6/43 (13%)
Query: 61 SHAHMDHIGGL-----PMYVATRGLYRMKPPTIIVPSCIKEDV 98
SHAH DH GG+ P VA+ G ++ P + + IKE+V
Sbjct: 168 SHAHADHFGGVRGLVEPQQVAS-GAVQIIAPAGFMEAAIKENV 209
>pdb|3U6N|A Chain A, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|B Chain B, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|C Chain C, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|D Chain D, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|E Chain E, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|F Chain F, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|G Chain G, Open Structure Of The Bk Channel Gating Ring
pdb|3U6N|H Chain H, Open Structure Of The Bk Channel Gating Ring
Length = 696
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 17/70 (24%)
Query: 121 DVGEEFCMRKDLFVKAFKTYHVIQSQGYVVYSVKQKLKQEYLGLPGDEIKKLKSSGTEIT 180
D+G+ C DLF KA KTY+++ + +Y +L+ +LG P K+
Sbjct: 620 DLGDGGCY-GDLFCKALKTYNML---CFGIY----RLRDAHLGAPSQCTKR--------- 662
Query: 181 YTVTTPEVAF 190
Y +T P F
Sbjct: 663 YVITNPPYEF 672
>pdb|2CG3|A Chain A, Crystal Structure Of Sdsa1, An Alkylsulfatase From
Pseudomonas Aeruginosa
Length = 658
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 6/43 (13%)
Query: 61 SHAHMDHIGGL-----PMYVATRGLYRMKPPTIIVPSCIKEDV 98
SHAH DH GG+ P VA+ G ++ P + IKE+V
Sbjct: 168 SHAHADHFGGVRGLVEPQQVAS-GAVQIIAPAGFXEAAIKENV 209
>pdb|3QVE|A Chain A, Crystal Structure Of Human Hmg Box-Containing Protein 1,
Hbp1
pdb|3QVE|B Chain B, Crystal Structure Of Human Hmg Box-Containing Protein 1,
Hbp1
pdb|3QVE|C Chain C, Crystal Structure Of Human Hmg Box-Containing Protein 1,
Hbp1
Length = 139
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 37/98 (37%), Gaps = 17/98 (17%)
Query: 2 ATKAKEEEKSGRGMQLQGYKVEGLSIAGHETCIIFPS--LDLAFDIGRCPSRALSQNFLF 59
A EE G+ +GY +GL + HE + F L L FD G ++ L
Sbjct: 37 AEGCDNEEDLQMGIH-KGYGSDGLKLLSHEESVSFGESVLKLTFDPGT------VEDGLL 89
Query: 60 ISHAHMDHIGGLPMYVATRGLYRMKPPTIIV----PSC 93
+DH P YV +G P +V P C
Sbjct: 90 TVECKLDH----PFYVKNKGWSSFYPSLTVVQHGIPCC 123
>pdb|2V9K|A Chain A, Crystal Structure Of Human Pus10, A Novel Pseudouridine
Synthase
Length = 530
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 53/112 (47%), Gaps = 25/112 (22%)
Query: 110 HSELNHTLVGLDVGEEFCMRKDLFVKAFKTYHVIQSQGY----VVYSV------------ 153
+S LN V L + +EFC KD F+K K +++ G+ +V+SV
Sbjct: 104 NSNLNVCNVCLGILQEFC-EKD-FIK--KVCQKVEASGFEFTSLVFSVSFPPQLSVREHA 159
Query: 154 -----KQKLKQEYLGLPGDEIKKLKSSGTEITYTVTTPEVAFTGDTMSDFIV 200
KQ++ ++ L L D+I +LK + IT+ + + E+ D S F V
Sbjct: 160 AWLLVKQEMGKQSLSLGRDDIVQLKEAYKWITHPLFSEELGVPIDGKSLFEV 211
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 8/50 (16%)
Query: 24 GLSIAGHETCIIFPSLDLAFDIGRCPSRAL-SQNFLFISHAHMDHIGGLP 72
G+++AG + +P L++ P L S + + I+HAH+DH G LP
Sbjct: 210 GVNVAGGDDKNSYPYLNV-------PEFTLDSLDAVIITHAHLDHSGFLP 252
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 0.137 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,454,598
Number of Sequences: 62578
Number of extensions: 337204
Number of successful extensions: 866
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 851
Number of HSP's gapped (non-prelim): 38
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)