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= 010056
(519 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 298
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 55/273 (20%), Positives = 105/273 (38%), Gaps = 53/273 (19%)
Query: 219 LERYPE----VLGFKLEGTMSTSVAYLVGIGVSRREIGGVLTRYPDILGMRVGRVIKPFV 274
+E++PE +L E + + +L +G+ ++G LT+ I + +K V
Sbjct: 50 IEKHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNHAIFSEDLEN-LKTRV 108
Query: 275 EYLESLGIPRLAVARLIEKKPYILGFGLEERVKPNVESLLEFSVRKEALPVVVAQYPEII 334
YL S + VA+++ K P++L F +E
Sbjct: 109 AYLHSKNFSKADVAQMVRKAPFLLNFSVE------------------------------- 137
Query: 335 GIDLKPKLLGQQSLLNSAIDSSSKDFGSIVEKMPQVVNASNSAVTRHVDFLK-SCGFFLQ 393
+L + ++ S K +V ++P+++ S V ++ + GF
Sbjct: 138 ------RLDNRLGFFQKELELSVKKTRDLVVRLPRLLTGSLEPVKENMKVYRLELGFKHN 191
Query: 394 QVRQIVVECPQVLALNLDIMKLSFDYFQREMQRPLDDLVVFPAFFTYGLESTIKPRHKMI 453
+++ ++ P++L N + +FD+ M P +V FP F L +K RH +
Sbjct: 192 EIQHMITRIPKMLTANKMKLTETFDFVHNVMSIPHHIIVKFPQVFNTRL-FKVKERHLFL 250
Query: 454 ARKGLQ---------CSLSWLLNCSDEKFKERM 477
G SL L++ DE F E +
Sbjct: 251 TYLGRAQYDPAKPNYISLDKLVSIPDEIFCEEI 283
>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 270
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 59/287 (20%), Positives = 112/287 (39%), Gaps = 54/287 (18%)
Query: 205 LQGLDIKPNDIPRVLERYPE----VLGFKLEGTMSTSVAYLVGIGVSRREIGGVLTRYPD 260
LQ L + D+ ++ E++PE +L E + + +L +G+ ++G LT+
Sbjct: 9 LQKLVLLGVDLSKI-EKHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNHA 67
Query: 261 ILGMRVGRVIKPFVEYLESLGIPRLAVARLIEKKPYILGFGLEERVKPNVESLLEFSVRK 320
I + +K V YL S + VA+++ K P++L F +E
Sbjct: 68 IFSEDLEN-LKTRVAYLHSKNFSKADVAQMVRKAPFLLNFSVE----------------- 109
Query: 321 EALPVVVAQYPEIIGIDLKPKLLGQQSLLNSAIDSSSKDFGSIVEKMPQVVNASNSAVTR 380
+L + ++ S K +V ++P+++ S V
Sbjct: 110 --------------------RLDNRLGFFQKELELSVKKTRDLVVRLPRLLTGSLEPVKE 149
Query: 381 HVDFLK-SCGFFLQQVRQIVVECPQVLALNLDIMKLSFDYFQREMQRPLDDLVVFPAFFT 439
++ + GF +++ ++ P++L N + +FD+ M P +V FP F
Sbjct: 150 NMKVYRLELGFKHNEIQHMITRIPKMLTANKMKLTETFDFVHNVMSIPHHIIVKFPQVFN 209
Query: 440 YGLESTIKPRHKMIARKGLQ---------CSLSWLLNCSDEKFKERM 477
L +K RH + G SL L++ DE F E +
Sbjct: 210 TRL-FKVKERHLFLTYLGRAQYDPAKPNYISLDKLVSIPDEIFCEEI 255
>pdb|4FP9|B Chain B, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|E Chain E, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|G Chain G, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|H Chain H, Human Mterf4-Nsun4 Protein Complex
Length = 335
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 44/93 (47%), Gaps = 7/93 (7%)
Query: 368 PQVVNASNSAVTRHVDFLK-SCGFFLQQVRQIVVECPQVLALNLDIM--KLSFDYFQREM 424
P++ + V LK C F +QQV +I+ CP VL +L + K + YF+ +
Sbjct: 138 PEIFTMRQQDINDTVRLLKEKCLFTVQQVTKILHSCPSVLREDLGQLEYKFQYAYFRMGI 197
Query: 425 QRPLDDLVVFPAFFTYGLESTIKPRHKMIARKG 457
+ P +V + Y L + IK RH + R G
Sbjct: 198 KHP---DIVKSEYLQYSL-TKIKQRHIYLERLG 226
>pdb|4FZV|B Chain B, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
Complex
Length = 239
Score = 36.6 bits (83), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 44/93 (47%), Gaps = 7/93 (7%)
Query: 368 PQVVNASNSAVTRHVDFLK-SCGFFLQQVRQIVVECPQVLALNLDIM--KLSFDYFQREM 424
P++ + V LK C F +QQV +I+ CP VL +L + K + YF+ +
Sbjct: 93 PEIFTMRQQDINDTVRLLKEKCLFTVQQVTKILHSCPSVLREDLGQLEYKFQYAYFRMGI 152
Query: 425 QRPLDDLVVFPAFFTYGLESTIKPRHKMIARKG 457
+ P +V + Y L + IK RH + R G
Sbjct: 153 KHP---DIVKSEYLQYSL-TKIKQRHIYLERLG 181
>pdb|3GUU|A Chain A, X-Ray Structure Of Candida Antarctica Lipase A
pdb|3GUU|B Chain B, X-Ray Structure Of Candida Antarctica Lipase A
Length = 462
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 188 QVLHSSVVVDLAPVVKYLQGLDIKPNDIPRVLERYPEVLGFKLE 231
QV + +D AP YL GLD +PN + VL+ P ++G+ L+
Sbjct: 112 QVYEDATALDCAPSYSYLTGLD-QPNKVTAVLDT-PIIIGWALQ 153
>pdb|2VEO|A Chain A, X-Ray Structure Of Candida Antarctica Lipase A In Its
Closed State.
pdb|2VEO|B Chain B, X-Ray Structure Of Candida Antarctica Lipase A In Its
Closed State
Length = 441
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 188 QVLHSSVVVDLAPVVKYLQGLDIKPNDIPRVLERYPEVLGFKLE 231
QV + +D AP YL GLD +PN + VL+ P ++G+ L+
Sbjct: 91 QVYEDATALDCAPSYSYLTGLD-QPNKVTAVLDT-PIIIGWALQ 132
>pdb|3PIC|A Chain A, Glucuronoyl Esterase Catalytic Domain (Cip2_ge) From
Hypocrea Jecorina
pdb|3PIC|B Chain B, Glucuronoyl Esterase Catalytic Domain (Cip2_ge) From
Hypocrea Jecorina
pdb|3PIC|C Chain C, Glucuronoyl Esterase Catalytic Domain (Cip2_ge) From
Hypocrea Jecorina
Length = 375
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 36/87 (41%), Gaps = 16/87 (18%)
Query: 363 IVEKMPQVVNASNSAVTRHVDFLKSCGFFLQQVRQIVVECPQVLALNLDIMKLSFDYFQR 422
IV +PQ A SA R D+LKS G +Q +I+ E P +F
Sbjct: 209 IVLTLPQESGAGGSACWRISDYLKSQGANIQTASEIIGEDP---------------WFST 253
Query: 423 EMQRPLDDLVVFPAFFTYGLESTIKPR 449
++ + V P F + L + I PR
Sbjct: 254 TFNSYVNQVPVLP-FDHHSLAALIAPR 279
>pdb|1VKO|A Chain A, Crystal Structure Of Inositol-3-Phosphate Synthase
(Ce21227) From Caenorhabditis Elegans At 2.30 A
Resolution
Length = 537
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 396 RQIVVECPQVLALNLDIMKLSFDYFQREMQRPLDDLVVFPAFFTYGLESTIKPR 449
++++VE P V L +++ F Y + + D L V P Y ++ +KPR
Sbjct: 23 KRLIVESPNV-KLEDGVLESRFTYRKNHFEHRADGLHVTPKEHDYSFKTVLKPR 75
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 0.140 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,164,565
Number of Sequences: 62578
Number of extensions: 590160
Number of successful extensions: 1434
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1421
Number of HSP's gapped (non-prelim): 18
length of query: 519
length of database: 14,973,337
effective HSP length: 103
effective length of query: 416
effective length of database: 8,527,803
effective search space: 3547566048
effective search space used: 3547566048
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)